Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 8 of 320
Found at i:2067073 original size:13 final size:14
Alignment explanation
Indices: 2067047--2067075 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
2067037 AACTTAAAAT
2067047 AAGAAAAAGAATAA
1 AAGAAAAAGAATAA
2067061 AAGAAAAAG-ATAA
1 AAGAAAAAGAATAA
2067074 AA
1 AA
2067076 CTTTAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.79, C:0.00, G:0.14, T:0.07
Consensus pattern (14 bp):
AAGAAAAAGAATAA
Found at i:2074620 original size:32 final size:32
Alignment explanation
Indices: 2074579--2074642 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
2074569 GATGGAAAGG
2074579 GAATTCTTTGATTAGCCTCAGAAGTTTTTCTT
1 GAATTCTTTGATTAGCCTCAGAAGTTTTTCTT
2074611 GAATTCTTTGATTAGCCTCAGAAGTTTTTCTT
1 GAATTCTTTGATTAGCCTCAGAAGTTTTTCTT
2074643 CTTCTCATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.22, C:0.16, G:0.16, T:0.47
Consensus pattern (32 bp):
GAATTCTTTGATTAGCCTCAGAAGTTTTTCTT
Found at i:2082414 original size:40 final size:40
Alignment explanation
Indices: 2082370--2082535 Score: 183
Period size: 40 Copynumber: 4.2 Consensus size: 40
2082360 ATTGTTTGAT
*
2082370 TGCACATATGTGCCCCTGTTTGTACTTCAATACCCCTGAA
1 TGCACATACGTGCCCCTGTTTGTACTTCAATACCCCTGAA
* *
2082410 TGCACATACGTGCCCCTGCTTGTACTTCAGTACCCCT-AA
1 TGCACATACGTGCCCCTGTTTGTACTTCAATACCCCTGAA
* *** * *
2082449 CTGCACATACGTGCCCTTGTTTGTACTTTGGTACCCTTAAA
1 -TGCACATACGTGCCCCTGTTTGTACTTCAATACCCCTGAA
* * * * *
2082490 TGCACATATGTGCCCATATTTGTACTTCGATA-CCTTGAA
1 TGCACATACGTGCCCCTGTTTGTACTTCAATACCCCTGAA
2082529 TGCACAT
1 TGCACAT
2082536 TCTGTAATGG
Statistics
Matches: 110, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
39 15 0.14
40 93 0.85
41 2 0.02
ACGTcount: A:0.22, C:0.29, G:0.16, T:0.33
Consensus pattern (40 bp):
TGCACATACGTGCCCCTGTTTGTACTTCAATACCCCTGAA
Found at i:2082445 original size:20 final size:20
Alignment explanation
Indices: 2082382--2082446 Score: 51
Period size: 20 Copynumber: 3.2 Consensus size: 20
2082372 CACATATGTG
* *
2082382 CCCCTGTTTGTACTTCAATA
1 CCCCTGATTGTACTTCAGTA
* * * *
2082402 CCCCTGAATGCACAT-ACGTG
1 CCCCTGATTGTACTTCA-GTA
*
2082422 CCCCTGCTTGTACTTCAGTA
1 CCCCTGATTGTACTTCAGTA
2082442 CCCCT
1 CCCCT
2082447 AACTGCACAT
Statistics
Matches: 32, Mismatches: 11, Indels: 4
0.68 0.23 0.09
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.18, C:0.37, G:0.14, T:0.31
Consensus pattern (20 bp):
CCCCTGATTGTACTTCAGTA
Found at i:2111116 original size:22 final size:22
Alignment explanation
Indices: 2111061--2111116 Score: 53
Period size: 22 Copynumber: 2.5 Consensus size: 22
2111051 AGGATACTTT
* *
2111061 TTTTAATATTATTTTCTTATTA
1 TTTTACTATTATTTTCTTATCA
*
2111083 TTTT-CTCCTTATTTTGC-TATCA
1 TTTTACT-ATTATTTT-CTTATCA
2111105 TTTTACTATTAT
1 TTTTACTATTAT
2111117 GTTACTACTA
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
21 1 0.04
22 23 0.85
23 3 0.11
ACGTcount: A:0.21, C:0.12, G:0.02, T:0.64
Consensus pattern (22 bp):
TTTTACTATTATTTTCTTATCA
Found at i:2123145 original size:28 final size:28
Alignment explanation
Indices: 2123113--2123172 Score: 113
Period size: 28 Copynumber: 2.2 Consensus size: 28
2123103 TTGAACTCTG
2123113 ATATCATGTTAAGCATCCTTCCTAAAAC
1 ATATCATGTTAAGCATCCTTCCTAAAAC
2123141 ATATCATGTTAAGCATCCTTCCTAAAAC
1 ATATCATGTTAAGCATCCTTCCTAAAAC
2123169 -TATC
1 ATATC
2123173 TGGTAATAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 4 0.12
28 28 0.88
ACGTcount: A:0.35, C:0.25, G:0.07, T:0.33
Consensus pattern (28 bp):
ATATCATGTTAAGCATCCTTCCTAAAAC
Found at i:2127169 original size:20 final size:18
Alignment explanation
Indices: 2127112--2127170 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 18
2127102 GATATTATAA
*
2127112 AAATATATTATATAATTTAT
1 AAAT-TATTATATAA-ATAT
2127132 AAATTATATATATGAAATAT
1 AAATTAT-TATAT-AAATAT
2127152 AAAGTTAGTTATATAAATA
1 AAA-TTA-TTATATAAATA
2127171 ATTAAAATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
19 3 0.09
20 20 0.59
21 10 0.29
22 1 0.03
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (18 bp):
AAATTATTATATAAATAT
Found at i:2130692 original size:18 final size:18
Alignment explanation
Indices: 2130669--2130711 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
2130659 TGTATGATTA
*
2130669 TGCTAACGAGAACCTTCC
1 TGCTAACGAAAACCTTCC
2130687 TGCTAACGAAAACCTTCC
1 TGCTAACGAAAACCTTCC
2130705 TGCTAAC
1 TGCTAAC
2130712 ATCCAACGCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.30, C:0.33, G:0.14, T:0.23
Consensus pattern (18 bp):
TGCTAACGAAAACCTTCC
Found at i:2139675 original size:19 final size:20
Alignment explanation
Indices: 2139651--2139691 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
2139641 ATTCTAGTGA
* *
2139651 AATATTTAATTTTAT-TTTT
1 AATATTCAATTTGATATTTT
2139670 AATATTCAATTTGATATTTT
1 AATATTCAATTTGATATTTT
2139690 AA
1 AA
2139692 CTTTTTTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (20 bp):
AATATTCAATTTGATATTTT
Found at i:2139985 original size:5 final size:5
Alignment explanation
Indices: 2139964--2139998 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
2139954 TCGGTCACGC
*
2139964 TTCTT TTCATC TTCTT TTCTT TTCTT TTCTT TTCT
1 TTCTT TTC-TT TTCTT TTCTT TTCTT TTCTT TTCT
2139999 CTGACACTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
5 23 0.85
6 4 0.15
ACGTcount: A:0.03, C:0.23, G:0.00, T:0.74
Consensus pattern (5 bp):
TTCTT
Found at i:2147789 original size:92 final size:92
Alignment explanation
Indices: 2147632--2147822 Score: 355
Period size: 92 Copynumber: 2.1 Consensus size: 92
2147622 TGTTACCCTC
2147632 ATATGATATCCTTGATTCCTTTTAGTTAAATTCGTTCACTCAATACAATATTATTTTATCTCATT
1 ATATGATATCCTTGATTCCTTTTAGTTAAATTCGTTCACTCAATACAATATTATTTTATCTCATT
2147697 GTCACCATTGTGTCTTCTTAATGATTA
66 GTCACCATTGTGTCTTCTTAATGATTA
*
2147724 ATATGATATCCTTGATTCCTTTTAGTTAAATTCGTTCACTCAATACAATCTTATTTTATCTCATT
1 ATATGATATCCTTGATTCCTTTTAGTTAAATTCGTTCACTCAATACAATATTATTTTATCTCATT
* *
2147789 GTCATCGTTGTGTCTTCTTAATGATTA
66 GTCACCATTGTGTCTTCTTAATGATTA
2147816 ATATGAT
1 ATATGAT
2147823 CACTGTCAAT
Statistics
Matches: 96, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
92 96 1.00
ACGTcount: A:0.27, C:0.17, G:0.09, T:0.47
Consensus pattern (92 bp):
ATATGATATCCTTGATTCCTTTTAGTTAAATTCGTTCACTCAATACAATATTATTTTATCTCATT
GTCACCATTGTGTCTTCTTAATGATTA
Found at i:2152039 original size:36 final size:36
Alignment explanation
Indices: 2151994--2152068 Score: 89
Period size: 36 Copynumber: 2.1 Consensus size: 36
2151984 AAATCACAAA
*
2151994 TTTACATATAAGTT-TATCAAGATTTAATTATATGTG
1 TTTAAATAT-AGTTATATCAAGATTTAATTATATGTG
* ** *
2152030 TTTAAATATATTTATATTTATATTTAATTATATGTG
1 TTTAAATATAGTTATATCAAGATTTAATTATATGTG
2152066 TTT
1 TTT
2152069 GAGGATAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
35 3 0.09
36 30 0.91
ACGTcount: A:0.35, C:0.03, G:0.08, T:0.55
Consensus pattern (36 bp):
TTTAAATATAGTTATATCAAGATTTAATTATATGTG
Found at i:2152686 original size:28 final size:27
Alignment explanation
Indices: 2152649--2152701 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
2152639 TTTAAAACAA
* *
2152649 AAAACATTTAGATTTTTTATTTTAGAAT
1 AAAACATTTAAAGTTTTT-TTTTAGAAT
*
2152677 AAAACGTTTAAAGTTTTTTTTTAGA
1 AAAACATTTAAAGTTTTTTTTTAGA
2152702 TTTTATTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 7 0.32
28 15 0.68
ACGTcount: A:0.38, C:0.04, G:0.09, T:0.49
Consensus pattern (27 bp):
AAAACATTTAAAGTTTTTTTTTAGAAT
Found at i:2153435 original size:14 final size:14
Alignment explanation
Indices: 2153416--2153455 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
2153406 TTGATTGCCA
2153416 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
2153430 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
2153444 GGAAAATGTTTT
1 GTAAAATGTTTT
2153456 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:2153464 original size:20 final size:20
Alignment explanation
Indices: 2153439--2153478 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
2153429 CGTAAAATGA
*
2153439 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
2153459 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
2153479 GAAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:2153468 original size:34 final size:35
Alignment explanation
Indices: 2153424--2153490 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
2153414 CAGTAAAATG
* *
2153424 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGAAAAATATTTTAC
*
2153458 TTTTCTGTAAAATGATTTACTGAAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGAAAAATATTTT
2153491 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGAAAAATATTTTAC
Found at i:2156012 original size:12 final size:12
Alignment explanation
Indices: 2155995--2156048 Score: 56
Period size: 12 Copynumber: 4.4 Consensus size: 12
2155985 CAAAACGGGA
2155995 AAGGGAAGGGGT
1 AAGGGAAGGGGT
2156007 AAGGGAAAGGGGT
1 AAGGG-AAGGGGT
* *
2156020 AGGGGAAAGGG-
1 AAGGGAAGGGGT
*
2156031 AAGGAGAAGGGGA
1 AAGG-GAAGGGGT
2156044 AAGGG
1 AAGGG
2156049 GAGAAGAATG
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
11 3 0.09
12 17 0.49
13 15 0.43
ACGTcount: A:0.39, C:0.00, G:0.57, T:0.04
Consensus pattern (12 bp):
AAGGGAAGGGGT
Found at i:2156014 original size:18 final size:18
Alignment explanation
Indices: 2155991--2156048 Score: 73
Period size: 18 Copynumber: 3.2 Consensus size: 18
2155981 GCTTCAAAAC
*
2155991 GGGAAAGGGAAGGGGTAA
1 GGGAAAGGGAAGGGGAAA
*
2156009 GGGAAAGGGGTAGGGGAAA
1 GGGAAA-GGGAAGGGGAAA
2156028 GGG-AAGGAGAAGGGGAAA
1 GGGAAAGG-GAAGGGGAAA
2156046 GGG
1 GGG
2156049 GAGAAGAATG
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
17 2 0.06
18 20 0.57
19 13 0.37
ACGTcount: A:0.38, C:0.00, G:0.59, T:0.03
Consensus pattern (18 bp):
GGGAAAGGGAAGGGGAAA
Found at i:2156018 original size:13 final size:13
Alignment explanation
Indices: 2155995--2156030 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
2155985 CAAAACGGGA
2155995 AAGGG-AAGGGGT
1 AAGGGAAAGGGGT
2156007 AAGGGAAAGGGGT
1 AAGGGAAAGGGGT
*
2156020 AGGGGAAAGGG
1 AAGGGAAAGGG
2156031 AAGGAGAAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 5 0.23
13 17 0.77
ACGTcount: A:0.36, C:0.00, G:0.58, T:0.06
Consensus pattern (13 bp):
AAGGGAAAGGGGT
Found at i:2156029 original size:31 final size:31
Alignment explanation
Indices: 2155991--2156049 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
2155981 GCTTCAAAAC
*
2155991 GGGAAAGGGAAGGGGTAA-GGGAAAGGGGTAG
1 GGGAAAGGGAAGGAG-AAGGGGAAAGGGGTAG
2156022 GGGAAAGGGAAGGAGAAGGGGAAAGGGG
1 GGGAAAGGGAAGGAGAAGGGGAAAGGGG
2156050 AGAAGAATGG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 2 0.08
31 24 0.92
ACGTcount: A:0.37, C:0.00, G:0.59, T:0.03
Consensus pattern (31 bp):
GGGAAAGGGAAGGAGAAGGGGAAAGGGGTAG
Found at i:2156056 original size:18 final size:18
Alignment explanation
Indices: 2156020--2156056 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
2156010 GGAAAGGGGT
*
2156020 AGGGGAAAGGGAAGGAGA
1 AGGGGAAAGGGAAGAAGA
*
2156038 AGGGGAAAGGGGAGAAGA
1 AGGGGAAAGGGAAGAAGA
2156056 A
1 A
2156057 TGGGTCATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.54, T:0.00
Consensus pattern (18 bp):
AGGGGAAAGGGAAGAAGA
Found at i:2158655 original size:19 final size:20
Alignment explanation
Indices: 2158633--2158683 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 20
2158623 AGTGCCTAGG
*
2158633 CCATGTGGAGTCT-ACACGC
1 CCATGTGGAGGCTAACACGC
*
2158652 CCATGTGAAGGCTACACACGC
1 CCATGTGGAGGCTA-ACACGC
2158673 CCATGTGGAGG
1 CCATGTGGAGG
2158684 GGACACACGC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 11 0.41
21 16 0.59
ACGTcount: A:0.24, C:0.29, G:0.29, T:0.18
Consensus pattern (20 bp):
CCATGTGGAGGCTAACACGC
Found at i:2158672 original size:21 final size:21
Alignment explanation
Indices: 2158646--2158693 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
2158636 TGTGGAGTCT
*
2158646 ACACGCCCATGTGAAGGCTAC
1 ACACGCCCATGTGAAGGCGAC
* *
2158667 ACACGCCCATGTGGAGGGGAC
1 ACACGCCCATGTGAAGGCGAC
2158688 ACACGC
1 ACACGC
2158694 ATGTGTAACT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.27, C:0.33, G:0.29, T:0.10
Consensus pattern (21 bp):
ACACGCCCATGTGAAGGCGAC
Found at i:2158942 original size:17 final size:17
Alignment explanation
Indices: 2158916--2158953 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
2158906 GAGCTGCTTC
*
2158916 TGTGCGACACATGCCTA
1 TGTGCAACACATGCCTA
*
2158933 TGTGCAACACATGCCTG
1 TGTGCAACACATGCCTA
2158950 TGTG
1 TGTG
2158954 GCCTCCCGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.21, C:0.26, G:0.26, T:0.26
Consensus pattern (17 bp):
TGTGCAACACATGCCTA
Found at i:2162453 original size:24 final size:24
Alignment explanation
Indices: 2162421--2162490 Score: 131
Period size: 24 Copynumber: 2.9 Consensus size: 24
2162411 AACGTCCCTC
2162421 CTTCAGCACCTGGCTTTCCTGGCT
1 CTTCAGCACCTGGCTTTCCTGGCT
2162445 CTTCAGCACCTGGCTTTCCTGGCT
1 CTTCAGCACCTGGCTTTCCTGGCT
*
2162469 CTTCAGCATCTGGCTTTCCTGG
1 CTTCAGCACCTGGCTTTCCTGG
2162491 TTTCCCTTCG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.09, C:0.36, G:0.21, T:0.34
Consensus pattern (24 bp):
CTTCAGCACCTGGCTTTCCTGGCT
Found at i:2164294 original size:31 final size:30
Alignment explanation
Indices: 2164165--2164295 Score: 88
Period size: 32 Copynumber: 4.3 Consensus size: 30
2164155 TTAATATAAT
* * *
2164165 ATTTAGTACCTGAACTTGACTTTTTTTTTCTA
1 ATTTGGTACCTAAACTTGAC-TTTTTTCT-TA
* *
2164197 ATTTGATACTTAAACTTGACATTTTTTCTTA
1 ATTTGGTACCTAAACTTGAC-TTTTTTCTTA
* * * * **
2164228 AATTGGTACTTGATCTT---TTTTTAGGTTCA
1 ATTTGGTACCTAAACTTGACTTTTT-TCTT-A
2164257 ATTTGGTACCTAAACTTGACTCTTTTTCTTA
1 ATTTGGTACCTAAACTTGACT-TTTTTCTTA
2164288 ATTTGGTA
1 ATTTGGTA
2164296 TCCAATTTTT
Statistics
Matches: 75, Mismatches: 18, Indels: 13
0.71 0.17 0.12
Matches are distributed among these distances:
27 5 0.07
28 2 0.03
29 14 0.19
31 24 0.32
32 26 0.35
33 4 0.05
ACGTcount: A:0.24, C:0.14, G:0.11, T:0.51
Consensus pattern (30 bp):
ATTTGGTACCTAAACTTGACTTTTTTCTTA
Found at i:2164307 original size:60 final size:60
Alignment explanation
Indices: 2164196--2164308 Score: 142
Period size: 60 Copynumber: 1.9 Consensus size: 60
2164186 TTTTTTTTCT
* **
2164196 AATTTGATACTTAAACTTGACATTTTTTCTTAAATTGGTACTTGATCTTTTTTTAGGTTC
1 AATTTGATACCTAAACTTGACATTTTTTCTTAAATTGGTACTCAATCTTTTTTTAGGTTC
* *
2164256 AATTTGGTACCTAAACTTGAC-TCTTTTTCTTAATTTGGTA-TCCAAT-TTTTTTT
1 AATTTGATACCTAAACTTGACAT-TTTTTCTTAAATTGGTACT-CAATCTTTTTTT
2164309 GTTCGATTTG
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
59 9 0.20
60 37 0.80
ACGTcount: A:0.24, C:0.13, G:0.11, T:0.52
Consensus pattern (60 bp):
AATTTGATACCTAAACTTGACATTTTTTCTTAAATTGGTACTCAATCTTTTTTTAGGTTC
Found at i:2164879 original size:20 final size:20
Alignment explanation
Indices: 2164854--2164891 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
2164844 AAAAAAAAAC
*
2164854 TATATTCAGATACTAAATGT
1 TATATTCAGATACCAAATGT
2164874 TATATTCAGATACCAAAT
1 TATATTCAGATACCAAAT
2164892 TAAAAAAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.13, G:0.08, T:0.37
Consensus pattern (20 bp):
TATATTCAGATACCAAATGT
Found at i:2166409 original size:24 final size:24
Alignment explanation
Indices: 2166382--2166433 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
2166372 GGTTGAGTCG
* *
2166382 TTGGCA-ATGTTGGTATCGTTGGCA
1 TTGGCAGA-GTTGGGATCATTGGCA
2166406 TTGGCAGAGTTGGGATCATTGGCA
1 TTGGCAGAGTTGGGATCATTGGCA
2166430 TTGG
1 TTGG
2166434 AGGTAACTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 24 0.96
25 1 0.04
ACGTcount: A:0.17, C:0.12, G:0.37, T:0.35
Consensus pattern (24 bp):
TTGGCAGAGTTGGGATCATTGGCA
Found at i:2172457 original size:57 final size:57
Alignment explanation
Indices: 2172369--2172485 Score: 207
Period size: 57 Copynumber: 2.1 Consensus size: 57
2172359 TCAAAAGCTT
* * *
2172369 AGTAGGAGCAATTACTACACATGGAGTCTTTAAATAAGTTTTATTTGAAAAGAAAAG
1 AGTAGGAGCAATTACAACACATGGAATCTTTAAATAAGTTTTATCTGAAAAGAAAAG
2172426 AGTAGGAGCAATTACAACACATGGAATCTTTAAATAAGTTTTATCTGAAAAGAAAAG
1 AGTAGGAGCAATTACAACACATGGAATCTTTAAATAAGTTTTATCTGAAAAGAAAAG
2172483 AGT
1 AGT
2172486 GGTGGAGTGT
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.44, C:0.09, G:0.19, T:0.28
Consensus pattern (57 bp):
AGTAGGAGCAATTACAACACATGGAATCTTTAAATAAGTTTTATCTGAAAAGAAAAG
Found at i:2172571 original size:16 final size:18
Alignment explanation
Indices: 2172534--2172573 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
2172524 GAATTCTTAT
*
2172534 TAAAATAAAATATAGTAG
1 TAAAATAAAATATAGAAG
2172552 TAAAATAAAATA-A-AAG
1 TAAAATAAAATATAGAAG
2172568 TAAAAT
1 TAAAAT
2172574 CCATATAGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 8 0.38
17 1 0.05
18 12 0.57
ACGTcount: A:0.68, C:0.00, G:0.07, T:0.25
Consensus pattern (18 bp):
TAAAATAAAATATAGAAG
Found at i:2177046 original size:45 final size:47
Alignment explanation
Indices: 2176993--2177102 Score: 152
Period size: 48 Copynumber: 2.4 Consensus size: 47
2176983 TCCATATAGA
* *
2176993 ACTACACTTCTTTTATTT-TATT-TTAGAATAAGGTTTTTCAACCTT
1 ACTACACTTCTTCTATTTATATTATTAGAATAAGGTGTTTCAACCTT
* *
2177038 ATTACACTTCATCTATTTGATATTATTAGAATAAGGTGTTTCAACCTT
1 ACTACACTTCTTCTATTT-ATATTATTAGAATAAGGTGTTTCAACCTT
*
2177086 ACTACACTCCTTCTATT
1 ACTACACTTCTTCTATT
2177103 AGAATATGGT
Statistics
Matches: 55, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
45 15 0.27
47 4 0.07
48 36 0.65
ACGTcount: A:0.28, C:0.18, G:0.07, T:0.46
Consensus pattern (47 bp):
ACTACACTTCTTCTATTTATATTATTAGAATAAGGTGTTTCAACCTT
Found at i:2180352 original size:13 final size:13
Alignment explanation
Indices: 2180334--2180358 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2180324 ACCATTCACT
2180334 AATTCCCTTATTG
1 AATTCCCTTATTG
2180347 AATTCCCTTATT
1 AATTCCCTTATT
2180359 TATATAGTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.24, G:0.04, T:0.48
Consensus pattern (13 bp):
AATTCCCTTATTG
Found at i:2183156 original size:19 final size:19
Alignment explanation
Indices: 2183134--2183172 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
2183124 TTTTAAAAGA
2183134 TAACTTTTAACATAAAATG
1 TAACTTTTAACATAAAATG
2183153 TAACTTTTAACATAAAATG
1 TAACTTTTAACATAAAATG
2183172 T
1 T
2183173 TTTCTCTTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.46, C:0.10, G:0.05, T:0.38
Consensus pattern (19 bp):
TAACTTTTAACATAAAATG
Found at i:2183594 original size:14 final size:14
Alignment explanation
Indices: 2183575--2183620 Score: 56
Period size: 16 Copynumber: 3.1 Consensus size: 14
2183565 GTTAGCGAAT
2183575 AAAATAAATAAATA
1 AAAATAAATAAATA
*
2183589 AAAATATATAAAATA
1 AAAATAAAT-AAATA
2183604 AAATATAAATAGAATA
1 AAA-ATAAATA-AATA
2183620 A
1 A
2183621 TTTATATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 8 0.30
15 9 0.33
16 10 0.37
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (14 bp):
AAAATAAATAAATA
Found at i:2186366 original size:46 final size:45
Alignment explanation
Indices: 2186314--2186480 Score: 196
Period size: 46 Copynumber: 3.6 Consensus size: 45
2186304 TATTTGGGCA
2186314 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATCGATGCGAATG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTAT-GATGCGAATG
* * * *
2186360 TCCGAGCTCGTCGAGTTGAGTCCGAGTTC-GTGA-GATG-TAACTAGG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGATGCGAA-T--G
*
2186405 CATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 --TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTAT-GATGCGAATG
*
2186453 CCCGAGCTCGTTGAGTTGAGTCCGAGTT
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTT
2186481 TGCGGGTTAC
Statistics
Matches: 101, Mismatches: 11, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 54 0.53
47 27 0.27
48 3 0.03
50 5 0.05
51 2 0.02
ACGTcount: A:0.19, C:0.21, G:0.31, T:0.29
Consensus pattern (45 bp):
TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGATGCGAATG
Found at i:2186469 original size:93 final size:93
Alignment explanation
Indices: 2186310--2186480 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
2186300 AGGATATTTG
*
2186310 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATCGATGCGAATGTCCGAGCTCGTCGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATCGATGCGAATGCCCGAGCTCGTCGAG
2186375 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * *
2186403 GGCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGCCCGAGCTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATCGATGCGAATGCCCGAGCTCGTCGAG
2186468 TTGAGTCCGAGTT
66 TTGAGTCCGAGTT
2186481 TGCGGGTTAC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.19, C:0.21, G:0.31, T:0.29
Consensus pattern (93 bp):
GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATCGATGCGAATGCCCGAGCTCGTCGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:2199658 original size:47 final size:48
Alignment explanation
Indices: 2199589--2199906 Score: 230
Period size: 46 Copynumber: 6.7 Consensus size: 48
2199579 GTGTAATGCT
*
2199589 GATGCCATGTCCCAGACATGGTCTTACACTGGCTTATC-TGTCAAGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTTATCATGTCAAGCC
* * **
2199636 GATGCCATGTCCCAGACATGGTCTTACACTGAC-TATTGAAATCAAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTTA-TCATGTCAA-GCC
* * * * *
2199685 GACGCCGTGTCCCAGACATGGTCTTACACTAGCTCTCA-CTTATCTATA-CC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCT-T-ATCATGTC-A-AGCC
* * * * *
2199735 GATGCCATATCCCAGACATGGTCTTACACTGAC--A-CATCTCGTAGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTTATCATGTC-AAGCC
* * * * * * *
2199781 GA-GGCATGTCCCAAACAT-GTCTTATATTGGCTTA-CATATCGAGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTTATCATGTC-AAGCC
* * *
2199827 GATG-CATGTCCCAGACAT-GTCTTACACTAGC-TATCGTCTCAATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTTATCATGTCAA-GCC
*
2199873 GATGCCATATCCCAGACATGGTCTTACACTGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCT
2199907 CTCATAATAT
Statistics
Matches: 211, Mismatches: 43, Indels: 32
0.74 0.15 0.11
Matches are distributed among these distances:
44 10 0.05
45 17 0.08
46 53 0.25
47 47 0.22
48 16 0.08
49 31 0.15
50 33 0.16
51 2 0.01
52 2 0.01
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.28
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTTATCATGTCAAGCC
Found at i:2199713 original size:49 final size:47
Alignment explanation
Indices: 2199592--2199903 Score: 184
Period size: 47 Copynumber: 6.6 Consensus size: 47
2199582 TAATGCTGAT
* * *
2199592 GCCATGTCCCAGACATGGTCTTACACTGGCTTATCTGTCAAGTCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGACTTATCTGTCAAGCCGAC
2199639 GCCATGTCCCAGACATGGTCTTACACTGAC-TAT-TGAAATCAAGGCCGAC
1 GCCATGTCCCAGACATGGTCTTACACTGACTTATCTG---TCAA-GCCGAC
* * *
2199688 GCCGTGTCCCAGACATGGTCTTACACT-AGCTCTCA-CTTATCTATA-CCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGA-CT-T-ATC-TGTC-A-AGCCGAC
* ** *
2199738 GCCATATCCCAGACATGGTCTTACACTGACACATCTCGT--AGTCGA-
1 GCCATGTCCCAGACATGGTCTTACACTGACTTATCT-GTCAAGCCGAC
* * * * * * * * *
2199783 GGCATGTCCCAAACAT-GTCTTATATTGGCTTA-CATATCGAGGCTGAT
1 GCCATGTCCCAGACATGGTCTTACACTGACTTATC-TGTC-AAGCCGAC
* *
2199830 G-CATGTCCCAGACAT-GTCTTACACT-AGC-TATCGTCTCAATGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGA-CTTATC-TGTCAA-GCCGAC
*
2199876 GCCATATCCCAGACATGGTCTTACACTG
1 GCCATGTCCCAGACATGGTCTTACACTG
2199904 GCTCTCATAA
Statistics
Matches: 205, Mismatches: 33, Indels: 52
0.71 0.11 0.18
Matches are distributed among these distances:
43 2 0.01
44 12 0.06
45 19 0.09
46 41 0.20
47 43 0.21
48 17 0.08
49 33 0.16
50 32 0.16
51 3 0.01
52 2 0.01
53 1 0.00
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.28
Consensus pattern (47 bp):
GCCATGTCCCAGACATGGTCTTACACTGACTTATCTGTCAAGCCGAC
Found at i:2199897 original size:94 final size:96
Alignment explanation
Indices: 2199583--2199949 Score: 314
Period size: 94 Copynumber: 3.9 Consensus size: 96
2199573 CATAGGGTGT
* * * *
2199583 AATGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCT-TATC-TGTCAAGTCGATGCCATGT
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTA-CATATCAGGCCGATGCCATGT
* **
2199646 CCCAGACATGGTCTTACACTGACTATTGAAATC
65 CCCAGACATGGTCTTACACTGACTATCG-TCTC
* * * * * ** *
2199679 AAGGCCGACGCCGTGTCCCAGACATGGTCTTACACTAGCTCTCACTTATCTATACCGATGCCATA
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-ACATATC-AGGCCGATGCCATG
*
2199744 TCCCAGACATGGTCTTACACTGAC-A-CATCTC
64 TCCCAGACATGGTCTTACACTGACTATCGTCTC
* * * * * * *
2199775 -GTAGTCGA-GGCATGTCCCAAACAT-GTCTTATATTGGCT-TACATATCGAGGCTGATG-CATG
1 AAT-GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATATC-AGGCCGATGCCATG
2199835 TCCCAGACAT-GTCTTACACT-AGCTATCGTCTC
64 TCCCAGACATGGTCTTACACTGA-CTATCGTCTC
*
2199867 AATGCCGATGCCATATCCCAGACATGGTCTTACACTGGCTCT-CATAAT-ATGGCCGATG-CATG
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACAT-ATCA-GGCCGATGCCATG
**
2199929 TCTTAGACAT-GTCTTACACTG
64 TCCCAGACATGGTCTTACACTG
2199950 GCACACAAAT
Statistics
Matches: 216, Mismatches: 40, Indels: 31
0.75 0.14 0.11
Matches are distributed among these distances:
89 1 0.00
90 11 0.05
91 14 0.06
92 21 0.10
93 16 0.07
94 55 0.25
95 16 0.07
96 41 0.19
97 2 0.01
98 5 0.02
99 34 0.16
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (96 bp):
AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATATCAGGCCGATGCCATGTC
CCAGACATGGTCTTACACTGACTATCGTCTC
Found at i:2201365 original size:24 final size:25
Alignment explanation
Indices: 2201338--2201387 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
2201328 TTAAAAATCT
* *
2201338 CTTAAAATTTGAAA-TAAATAAATA
1 CTTAAAATATAAAACTAAATAAATA
*
2201362 CTTAAAATATAAAACTTAATAAATA
1 CTTAAAATATAAAACTAAATAAATA
2201387 C
1 C
2201388 AATATTGAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 12 0.55
25 10 0.45
ACGTcount: A:0.58, C:0.08, G:0.02, T:0.32
Consensus pattern (25 bp):
CTTAAAATATAAAACTAAATAAATA
Found at i:2202294 original size:89 final size:90
Alignment explanation
Indices: 2202130--2202321 Score: 230
Period size: 89 Copynumber: 2.1 Consensus size: 90
2202120 TGTGGCTGAG
* *
2202130 CCACCAGTG-TTGCAGGTTAATACGCTGCTAGTAGTTGTGATTACACAACGAGTTTACAGATAAA
1 CCACCAGTGTTTGCAGGTTAATACGCTGCTAGTACTTGTGAATACACAACGAGTTTACAGATAAA
* *
2202194 AGATGCCAGTATGAATTATGGAT-A
66 AGATACCAGTATAAATTATGGATAA
* * * *
2202218 CCACCAGTGTTTTCAGGTTAATACGCTG-TCAGTACTTGTGAATACACAACTTAG-TTGCAGATT
1 CCACCAGTGTTTGCAGGTTAATACGCTGCT-AGTACTTGTGAATACACAAC-GAGTTTACAGATA
* * *
2202281 AAAGCTACTAGTATAAATTGTGGATAAA
64 AAAGATACCAGTATAAATTATGGAT-AA
2202309 CCACCAGTGTTTG
1 CCACCAGTGTTTG
2202322 TAGATTATTA
Statistics
Matches: 87, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
88 10 0.11
89 62 0.71
90 2 0.02
91 13 0.15
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (90 bp):
CCACCAGTGTTTGCAGGTTAATACGCTGCTAGTACTTGTGAATACACAACGAGTTTACAGATAAA
AGATACCAGTATAAATTATGGATAA
Found at i:2203018 original size:12 final size:12
Alignment explanation
Indices: 2203001--2203034 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
2202991 CTGATTCGTT
2203001 CTTAAAAGAACA
1 CTTAAAAGAACA
*
2203013 CTTAAAAGAACT
1 CTTAAAAGAACA
2203025 CTTAAAAGAA
1 CTTAAAAGAA
2203035 GAAAAAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.56, C:0.15, G:0.09, T:0.21
Consensus pattern (12 bp):
CTTAAAAGAACA
Found at i:2209986 original size:18 final size:17
Alignment explanation
Indices: 2209940--2209988 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
2209930 AAGCCCAGAA
*
2209940 TTTCACTTTAAATTTTG
1 TTTCATTTTAAATTTTG
*
2209957 TTTCATTATAAATTATTG
1 TTTCATTTTAAATT-TTG
**
2209975 TTTTTTTTTAAATT
1 TTTCATTTTAAATT
2209989 CTTTAACCTA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
17 12 0.46
18 14 0.54
ACGTcount: A:0.27, C:0.06, G:0.04, T:0.63
Consensus pattern (17 bp):
TTTCATTTTAAATTTTG
Found at i:2227154 original size:46 final size:46
Alignment explanation
Indices: 2227094--2227308 Score: 279
Period size: 46 Copynumber: 4.7 Consensus size: 46
2227084 TTTGACGTGA
* * * * *
2227094 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATATCAGGT
* * * * *
2227140 TGCCATGGTATCTTTCAACCATGATCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
* * *
2227186 TGCCATGGTATCTTTCAACCATGGACTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
* *
2227232 TGCCATGGTATCTTTCAACCATGGTCTTTCACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
2227278 TGCCATGGTATCTTTCAACCATGGTCTTACT
1 TGCCATGGTATCTTTCAACCATGGTCTTACT
2227309 GTAATACCCC
Statistics
Matches: 148, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
45 4 0.03
46 144 0.97
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
Found at i:2230276 original size:38 final size:38
Alignment explanation
Indices: 2230225--2230297 Score: 128
Period size: 38 Copynumber: 1.9 Consensus size: 38
2230215 TCATATCAGT
* *
2230225 TTGCCATGGTATCTTTCAGCCATGGTCTTACACATAGG
1 TTGCCATGGTATCTTTCAACCATGATCTTACACATAGG
2230263 TTGCCATGGTATCTTTCAACCATGATCTTACACAT
1 TTGCCATGGTATCTTTCAACCATGATCTTACACAT
2230298 TTCATATCAG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (38 bp):
TTGCCATGGTATCTTTCAACCATGATCTTACACATAGG
Found at i:2230475 original size:59 final size:54
Alignment explanation
Indices: 2230344--2230476 Score: 144
Period size: 54 Copynumber: 2.4 Consensus size: 54
2230334 TTACAGTGGG
* * *
2230344 ATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAAAGTATTGTCGGG
1 ATTACCAGTCCAGGCTAAATCCCCTGTAAAACAAACTCATAAAGTATTGTCGGA
* *
2230398 ATTACCAGTCTAGGCTAAATCCCCTGTAACAACAATTACTC-TAATGAGCT-TTGATCTGA
1 ATTACCAGTCCAGGCTAAATCCCCTGTAA-AACAA--ACTCATAA--AG-TATTG-TCGGA
2230457 ATTACCAGTCCAGGCTAAAT
1 ATTACCAGTCCAGGCTAAAT
2230477 TCAGACCCTA
Statistics
Matches: 66, Mismatches: 6, Indels: 9
0.81 0.07 0.11
Matches are distributed among these distances:
54 28 0.42
55 3 0.05
56 3 0.05
57 4 0.06
58 5 0.08
59 23 0.35
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (54 bp):
ATTACCAGTCCAGGCTAAATCCCCTGTAAAACAAACTCATAAAGTATTGTCGGA
Found at i:2232413 original size:11 final size:11
Alignment explanation
Indices: 2232397--2232444 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
2232387 CTTTATATAC
2232397 TAATAAAATAA
1 TAATAAAATAA
*
2232408 TAATAAAATATCT
1 TAATAAAATA--A
* *
2232421 TATTAAAATAT
1 TAATAAAATAA
2232432 TAATAAAATAA
1 TAATAAAATAA
2232443 TA
1 TA
2232445 TTTATCTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 22 0.71
13 9 0.29
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:2236489 original size:184 final size:184
Alignment explanation
Indices: 2236161--2236528 Score: 569
Period size: 184 Copynumber: 2.0 Consensus size: 184
2236151 ATGAGATCAG
*
2236161 ATTTGAAAATAATTTTGAGATTGGCTTCAATTAGAAACTAAGGACCAATTTGGAAAAAGGAGGAA
1 ATTTGAAAATAAATTTGAGATTGGCTTCAATTAGAAACTAAGGACCAATTTGGAAAAAGGAGGAA
* * *
2236226 GCTATAGGTGGTCAAAGGGTCAAAAGCCCAATTTTTAAAAATTAGTTGGTTATATAAAATCACCT
66 ACTATAGGTGGTCAAAGGGTCAAAAGCCCAATTTTTAAAAATTAGTTGGCTATATAAAACCACCT
*
2236291 ACAATCCATTCCCTCCACACTT-TCAACCATTTCAAAACTTTGTTAGGTCTAAAA
131 ACAATCCATTCCCTCCACACTTCT-AACCATTTCAAAACTTTGTTAGATCTAAAA
* *
2236345 ATTTGAAGATAAATTTGAGATTGGCTTCAATTGGAAACTAAGGACCAATTTGG-AAAAGAGAGGA
1 ATTTGAAAATAAATTTGAGATTGGCTTCAATTAGAAACTAAGGACCAATTTGGAAAAAG-GAGGA
* * * *
2236409 AACTATATGTGGTCAAAGGGTTAAAAGCCCAATTTTTAAAAATTGGTTGGCTATATAAGACCACC
65 AACTATAGGTGGTCAAAGGGTCAAAAGCCCAATTTTTAAAAATTAGTTGGCTATATAAAACCACC
* * * *
2236474 TGCAGTCCTTTCCCTCCACACTTCTAACCATTTCAAAATTTTGTTAGATCTAAAA
130 TACAATCCATTCCCTCCACACTTCTAACCATTTCAAAACTTTGTTAGATCTAAAA
2236529 TCAAGAGTTT
Statistics
Matches: 167, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
183 5 0.03
184 161 0.96
185 1 0.01
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.30
Consensus pattern (184 bp):
ATTTGAAAATAAATTTGAGATTGGCTTCAATTAGAAACTAAGGACCAATTTGGAAAAAGGAGGAA
ACTATAGGTGGTCAAAGGGTCAAAAGCCCAATTTTTAAAAATTAGTTGGCTATATAAAACCACCT
ACAATCCATTCCCTCCACACTTCTAACCATTTCAAAACTTTGTTAGATCTAAAA
Found at i:2237022 original size:43 final size:43
Alignment explanation
Indices: 2236954--2237178 Score: 262
Period size: 43 Copynumber: 5.3 Consensus size: 43
2236944 TTTTTTAGAA
* *
2236954 AAACGCCGCTAAAGA-CATGATCTTTAGCGACACTTTTTTCAC
1 AAACGCCGCTAAAGACCATGAACTTTAGCGGCACTTTTTTCAC
* * * *
2236996 AAACGCCGCTAAAGACCAGGAACTTTAGCGGCGC--TTTTAAA
1 AAACGCCGCTAAAGACCATGAACTTTAGCGGCACTTTTTTCAC
* * * * *
2237037 AAACACCGCTAAAGACCATGACCTTTAGTGGCGC-TTTTTAAGC
1 AAACGCCGCTAAAGACCATGAACTTTAGCGGCACTTTTTTCA-C
*
2237080 AAACGCCGCTAAAGACCATGACCTTTAGCGGCACTTTTTTCAC
1 AAACGCCGCTAAAGACCATGAACTTTAGCGGCACTTTTTTCAC
* * *
2237123 AAACGCCGCTAAAGATCAT-AACCTTTACCGGCACTTTTCTCAC
1 AAACGCCGCTAAAGACCATGAA-CTTTAGCGGCACTTTTTTCAC
2237166 AAACGCCGCTAAA
1 AAACGCCGCTAAA
2237179 AATAATGATA
Statistics
Matches: 159, Mismatches: 19, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
41 35 0.22
42 22 0.14
43 96 0.60
44 6 0.04
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCATGAACTTTAGCGGCACTTTTTTCAC
Found at i:2237087 original size:84 final size:83
Alignment explanation
Indices: 2236935--2237178 Score: 283
Period size: 84 Copynumber: 2.9 Consensus size: 83
2236925 ACTGCAAAAA
* * * *
2236935 TTAGTGGCATTTTTTAGAAAAACGCCGCTAAAGACATGATCTTTAGCGACACTTTTTTCACAAAC
1 TTAGCGGCACTTTTTA-AAAAACGCCGCTAAAGACATGACCTTTAGCGGCAC-TTTTTCACAAAC
2237000 GCCGCTAAAGACCAGGAACT
64 GCCGCTAAAGACCAGGAACT
* * * * *
2237020 TTAGCGGCGC-TTTTAAAAAACACCGCTAAAGACCATGACCTTTAGTGGCGCTTTTTAAGCAAAC
1 TTAGCGGCACTTTTTAAAAAACGCCGCTAAAGA-CATGACCTTTAGCGGCACTTTTTCA-CAAAC
* *
2237084 GCCGCTAAAGACCATGACCT
64 GCCGCTAAAGACCAGGAACT
* * * *
2237104 TTAGCGGCACTTTTTTCACAAACGCCGCTAAAGATCATAACCTTTACCGGCACTTTTCTCACAAA
1 TTAGCGGCAC-TTTTTAAAAAACGCCGCTAAAGA-CATGACCTTTAGCGGCACTTTT-TCACAAA
2237169 CGCCGCTAAA
63 CGCCGCTAAA
2237179 AATAATGATA
Statistics
Matches: 133, Mismatches: 21, Indels: 9
0.82 0.13 0.06
Matches are distributed among these distances:
83 22 0.17
84 51 0.38
85 7 0.05
86 51 0.38
87 2 0.02
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (83 bp):
TTAGCGGCACTTTTTAAAAAACGCCGCTAAAGACATGACCTTTAGCGGCACTTTTTCACAAACGC
CGCTAAAGACCAGGAACT
Found at i:2241337 original size:18 final size:19
Alignment explanation
Indices: 2241314--2241354 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
2241304 ATAAGATTAA
*
2241314 TTTTAA-ATTTTTTTTTAT
1 TTTTAACATATTTTTTTAT
2241332 TTTTAACATATTTTTTTAT
1 TTTTAACATATTTTTTTAT
2241351 TTTT
1 TTTT
2241355 TCTTTTGGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTAACATATTTTTTTAT
Found at i:2241435 original size:8 final size:8
Alignment explanation
Indices: 2241424--2241492 Score: 65
Period size: 8 Copynumber: 9.1 Consensus size: 8
2241414 ATATTAAATA
2241424 TTAAATTT
1 TTAAATTT
*
2241432 TTAAGTTT
1 TTAAATTT
*
2241440 TT-TATTT
1 TTAAATTT
**
2241447 TTTTATTT
1 TTAAATTT
*
2241455 TT-TA-TT
1 TTAAATTT
2241461 TTAAATTT
1 TTAAATTT
2241469 TTAAA-TT
1 TTAAATTT
2241476 TTAAATTT
1 TTAAATTT
2241484 TTAAATTT
1 TTAAATTT
2241492 T
1 T
2241493 GAGTTTATTT
Statistics
Matches: 53, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
6 4 0.08
7 15 0.28
8 34 0.64
ACGTcount: A:0.29, C:0.00, G:0.01, T:0.70
Consensus pattern (8 bp):
TTAAATTT
Found at i:2241446 original size:15 final size:15
Alignment explanation
Indices: 2241428--2241485 Score: 64
Period size: 15 Copynumber: 3.9 Consensus size: 15
2241418 TAAATATTAA
*
2241428 ATTTTTAAGTTTTTT
1 ATTTTTAAATTTTTT
**
2241443 ATTTTTTTATTTTTT
1 ATTTTTAAATTTTTT
*
2241458 A-TTTTAAATTTTTA
1 ATTTTTAAATTTTTT
*
2241472 AATTTTAAATTTTT
1 ATTTTTAAATTTTT
2241486 AAATTTTGAG
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
14 11 0.31
15 25 0.69
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (15 bp):
ATTTTTAAATTTTTT
Found at i:2241486 original size:15 final size:15
Alignment explanation
Indices: 2241458--2241492 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
2241448 TTTATTTTTT
2241458 ATTTTAAATTTTTAA
1 ATTTTAAATTTTTAA
2241473 ATTTTAAATTTTTAA
1 ATTTTAAATTTTTAA
2241488 ATTTT
1 ATTTT
2241493 GAGTTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
ATTTTAAATTTTTAA
Found at i:2242097 original size:7 final size:7
Alignment explanation
Indices: 2242085--2242148 Score: 65
Period size: 7 Copynumber: 9.0 Consensus size: 7
2242075 CCCATGGCCA
2242085 TTAAACC
1 TTAAACC
2242092 TTAAACC
1 TTAAACC
*
2242099 ATAAAACC
1 -TTAAACC
*
2242107 CTAAACC
1 TTAAACC
* *
2242114 ATAGACC
1 TTAAACC
2242121 TTAAACC
1 TTAAACC
*
2242128 TTAAATC
1 TTAAACC
2242135 TTAAACC
1 TTAAACC
*
2242142 GTAAACC
1 TTAAACC
2242149 AAAAAATAAA
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
7 40 0.87
8 6 0.13
ACGTcount: A:0.45, C:0.28, G:0.03, T:0.23
Consensus pattern (7 bp):
TTAAACC
Found at i:2242127 original size:14 final size:14
Alignment explanation
Indices: 2242086--2242148 Score: 72
Period size: 14 Copynumber: 4.4 Consensus size: 14
2242076 CCATGGCCAT
2242086 TAAACCTTAAACCA
1 TAAACCTTAAACCA
*
2242100 TAAAACCCTAAACCA
1 T-AAACCTTAAACCA
* *
2242115 TAGACCTTAAACCT
1 TAAACCTTAAACCA
* *
2242129 TAAATCTTAAACCG
1 TAAACCTTAAACCA
2242143 TAAACC
1 TAAACC
2242149 AAAAAATAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
14 27 0.68
15 13 0.32
ACGTcount: A:0.46, C:0.29, G:0.03, T:0.22
Consensus pattern (14 bp):
TAAACCTTAAACCA
Found at i:2242313 original size:37 final size:37
Alignment explanation
Indices: 2242262--2242332 Score: 97
Period size: 37 Copynumber: 1.9 Consensus size: 37
2242252 ACGTTTTTTG
* * *
2242262 GGGTTTAGGGTTTTAGAAGTTATGGTTTAGTGTTTAT
1 GGGTTTAGGATTTTAGAAGTTATAGATTAGTGTTTAT
* *
2242299 GGGTTTAGTATTTTAGGAGTTATAGATTAGTGTT
1 GGGTTTAGGATTTTAGAAGTTATAGATTAGTGTT
2242333 CATGATTTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 29 1.00
ACGTcount: A:0.21, C:0.00, G:0.31, T:0.48
Consensus pattern (37 bp):
GGGTTTAGGATTTTAGAAGTTATAGATTAGTGTTTAT
Found at i:2242429 original size:41 final size:41
Alignment explanation
Indices: 2242372--2242471 Score: 146
Period size: 41 Copynumber: 2.4 Consensus size: 41
2242362 GGGTTATATG
* * *
2242372 ACTTTTAGCGGCGTTTTACCAAAAGTGCCGGTAATGCTCCA
1 ACTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCCCCA
* *
2242413 ACTTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCCCCG
1 ACTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCCCCA
2242454 ACTTTTAGCGGCGCTTTT
1 ACTTTTAGCGGCG-TTTT
2242472 GGTGCTCTGT
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
41 49 0.92
42 4 0.08
ACGTcount: A:0.20, C:0.27, G:0.22, T:0.31
Consensus pattern (41 bp):
ACTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCCCCA
Found at i:2242715 original size:25 final size:23
Alignment explanation
Indices: 2242670--2242715 Score: 56
Period size: 25 Copynumber: 1.9 Consensus size: 23
2242660 TATAGAGATA
* *
2242670 ATGAATAACATTTGTTTATTTCT
1 ATGAATAACATTTGATCATTTCT
2242693 ATGAATAATCAATTTGATCATTT
1 ATGAATAA-C-ATTTGATCATTT
2242716 AAGTAATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 8 0.42
24 1 0.05
25 10 0.53
ACGTcount: A:0.35, C:0.09, G:0.09, T:0.48
Consensus pattern (23 bp):
ATGAATAACATTTGATCATTTCT
Found at i:2255053 original size:13 final size:13
Alignment explanation
Indices: 2255035--2255059 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2255025 CATGTACGAC
2255035 ACACGGCTATGTT
1 ACACGGCTATGTT
2255048 ACACGGCTATGT
1 ACACGGCTATGT
2255060 GTCCCCTGGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (13 bp):
ACACGGCTATGTT
Found at i:2257259 original size:40 final size:41
Alignment explanation
Indices: 2257192--2257287 Score: 110
Period size: 40 Copynumber: 2.4 Consensus size: 41
2257182 CAACTATGCT
*
2257192 TGGCACTAAGTGTGCGGTTTAATATAGCT-TCGGCTACA-AA
1 TGGCACTAAGTGTGCGGTTGAATATAGCTCT-GGCTACATAA
* * *
2257232 TGGCACTAAGTGTGTGAGTTGGA-ATAGCTCTGGCTATATAA
1 TGGCACTAAGTGTGCG-GTTGAATATAGCTCTGGCTACATAA
2257273 -GGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
2257288 ATACTGACTT
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
40 41 0.85
41 7 0.15
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (41 bp):
TGGCACTAAGTGTGCGGTTGAATATAGCTCTGGCTACATAA
Found at i:2266780 original size:27 final size:27
Alignment explanation
Indices: 2266732--2266836 Score: 135
Period size: 27 Copynumber: 3.9 Consensus size: 27
2266722 GCAAGGCTGC
* *
2266732 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
2266759 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
2266785 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
2266812 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
2266837 GACGCTTCCT
Statistics
Matches: 71, Mismatches: 3, Indels: 8
0.87 0.04 0.10
Matches are distributed among these distances:
26 8 0.11
27 60 0.85
28 3 0.04
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:2268461 original size:26 final size:26
Alignment explanation
Indices: 2268432--2268539 Score: 162
Period size: 26 Copynumber: 4.2 Consensus size: 26
2268422 TGAAATTCCC
* * *
2268432 ATCATAAAACATCTACCTAACACATT
1 ATCATGAAACATTTACCTAACCCATT
*
2268458 ATCATGGAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
2268484 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
* *
2268510 ATCATGGAACATTTACCTAACCTATT
1 ATCATGAAACATTTACCTAACCCATT
2268536 ATCA
1 ATCA
2268540 GTTTGTATCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.39, C:0.26, G:0.05, T:0.31
Consensus pattern (26 bp):
ATCATGAAACATTTACCTAACCCATT
Found at i:2268504 original size:52 final size:52
Alignment explanation
Indices: 2268432--2268539 Score: 180
Period size: 52 Copynumber: 2.1 Consensus size: 52
2268422 TGAAATTCCC
2268432 ATCATAAAACATCTACCTAACACATTATCATGGAACATTTACCTAACCCATT
1 ATCATAAAACATCTACCTAACACATTATCATGGAACATTTACCTAACCCATT
* * * *
2268484 ATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCTATT
1 ATCATAAAACATCTACCTAACACATTATCATGGAACATTTACCTAACCCATT
2268536 ATCA
1 ATCA
2268540 GTTTGTATCA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.39, C:0.26, G:0.05, T:0.31
Consensus pattern (52 bp):
ATCATAAAACATCTACCTAACACATTATCATGGAACATTTACCTAACCCATT
Found at i:2268666 original size:13 final size:13
Alignment explanation
Indices: 2268648--2268682 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
2268638 CATGCAAATC
2268648 CTCCTATTTTGCA
1 CTCCTATTTTGCA
2268661 CTCCTATTTTGCA
1 CTCCTATTTTGCA
2268674 CTCCTATTT
1 CTCCTATTT
2268683 ATTTGACCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.14, C:0.31, G:0.06, T:0.49
Consensus pattern (13 bp):
CTCCTATTTTGCA
Found at i:2269715 original size:11 final size:11
Alignment explanation
Indices: 2269701--2269727 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
2269691 TAATAATTTT
2269701 ACATTGTCAAA
1 ACATTGTCAAA
2269712 ACATTGTCAAA
1 ACATTGTCAAA
2269723 ACATT
1 ACATT
2269728 TGCTTTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.44, C:0.19, G:0.07, T:0.30
Consensus pattern (11 bp):
ACATTGTCAAA
Found at i:2272444 original size:43 final size:44
Alignment explanation
Indices: 2272389--2272475 Score: 108
Period size: 43 Copynumber: 2.0 Consensus size: 44
2272379 ATATCGTACA
*
2272389 ATGCCAACGTCCCACAC-GTGGTCTTACATGTA-ATCACATATCG
1 ATGCCAACGTCCCACACAG-GGTCTTACATGCACATCACATATCG
* *
2272432 ATGCC-ACTGTCCCAGACAGGGTCTTACTTGCACATCACATATCG
1 ATGCCAAC-GTCCCACACAGGGTCTTACATGCACATCACATATCG
2272476 GAATCCTATG
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
42 2 0.05
43 24 0.63
44 12 0.32
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.25
Consensus pattern (44 bp):
ATGCCAACGTCCCACACAGGGTCTTACATGCACATCACATATCG
Found at i:2280685 original size:23 final size:23
Alignment explanation
Indices: 2280632--2280687 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
2280622 CTAGATTTCA
* *
2280632 CCACAAGGGCGTTACAGAATACG
1 CCACAAAGGCATTACAGAATACG
* *
2280655 CCATAAAGGCATTACAGAATATG
1 CCACAAAGGCATTACAGAATACG
*
2280678 CTACAAAGGC
1 CCACAAAGGC
2280688 TTTTTCACAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.39, C:0.23, G:0.21, T:0.16
Consensus pattern (23 bp):
CCACAAAGGCATTACAGAATACG
Found at i:2282129 original size:46 final size:46
Alignment explanation
Indices: 2282056--2282146 Score: 137
Period size: 46 Copynumber: 2.0 Consensus size: 46
2282046 AGAGTTATTA
* * *
2282056 GCTTTACAGAATATGCCACAAAAGCATCATAGAATACACTACAAAT
1 GCTTCACAGAATATACCACAAAAGCATCATAGAATACACCACAAAT
* *
2282102 GCTTCACAGAATATACCATAAAGGCATCATAGAATACACCACAAA
1 GCTTCACAGAATATACCACAAAAGCATCATAGAATACACCACAAA
2282147 GGTTTTCCAA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.46, C:0.23, G:0.11, T:0.20
Consensus pattern (46 bp):
GCTTCACAGAATATACCACAAAAGCATCATAGAATACACCACAAAT
Found at i:2282147 original size:23 final size:23
Alignment explanation
Indices: 2282071--2282148 Score: 93
Period size: 23 Copynumber: 3.4 Consensus size: 23
2282061 ACAGAATATG
*
2282071 CCACAAAAGCATCATAGAATACA
1 CCACAAAGGCATCATAGAATACA
* * * * *
2282094 CTACAAATGCTTCACAGAATATA
1 CCACAAAGGCATCATAGAATACA
*
2282117 CCATAAAGGCATCATAGAATACA
1 CCACAAAGGCATCATAGAATACA
2282140 CCACAAAGG
1 CCACAAAGG
2282149 TTTTCCAAAG
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.47, C:0.24, G:0.12, T:0.17
Consensus pattern (23 bp):
CCACAAAGGCATCATAGAATACA
Found at i:2284889 original size:19 final size:19
Alignment explanation
Indices: 2284865--2284910 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 19
2284855 ACAAACATAA
2284865 TAATTTATCAAT-ATATTTC
1 TAATTTATCAATCA-ATTTC
2284884 TAATTTCA-CAATCAATTTC
1 TAATTT-ATCAATCAATTTC
2284903 TAATTTAT
1 TAATTTAT
2284911 AAAACTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
18 1 0.04
19 21 0.88
20 2 0.08
ACGTcount: A:0.37, C:0.13, G:0.00, T:0.50
Consensus pattern (19 bp):
TAATTTATCAATCAATTTC
Found at i:2286757 original size:14 final size:15
Alignment explanation
Indices: 2286733--2286761 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
2286723 AGTAGGCATT
2286733 GTATAAAAAATATTA
1 GTATAAAAAATATTA
2286748 GTAT-AAAAATATTA
1 GTATAAAAAATATTA
2286762 AATGAATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (15 bp):
GTATAAAAAATATTA
Found at i:2286860 original size:173 final size:169
Alignment explanation
Indices: 2286621--2286963 Score: 528
Period size: 173 Copynumber: 2.0 Consensus size: 169
2286611 TTTAACTGGC
* * *
2286621 ACCATTTTTATTGTAGTAACTAAGAGGGCGGAGACGTGAATTTGTGTGTATTTAAATGCGTTTTT
1 ACCATTTTTATTATAGTAACTAAGAGGGCGGAGACGTGAATTTGTGTATATTTAAATGCATTTTT
* *
2286686 CTTCTAATTTAAAGGTTAGGATGAATTAAAAACTAAAAGTAGGCATTGTAT-AAAAAATATTAGT
66 CTTCGAATTTAAAGGTTAGGAGGAATTAAAAACT-AAA--A-GCA--GTATAAAAAAATATTAGT
*
2286750 ATAAAAATATTAAATGAATAATGTTTTAAAAGGAAGAGGAAATTA
125 ATAAAAATATTAAATGAATAATGCTTTAAAAGGAAGAGGAAATTA
* *
2286795 ACCA-TTTTATTATAGTAACTAAGAGGGCGGAGACGTGAATTTGTGTATATTTAAGTGTATTTTT
1 ACCATTTTTATTATAGTAACTAAGAGGGCGGAGACGTGAATTTGTGTATATTTAAATGCATTTTT
2286859 CTTCGAATTTAAAGGTTAGGAGGAATTAAAAACTAAAAGCAGTATAAAAAAATATTAGTATAAAA
66 CTTCGAATTTAAAGGTTAGGAGGAATTAAAAACTAAAAGCAGTATAAAAAAATATTAGTATAAAA
* *
2286924 ATATTCAATGAATTATGCTTTAAAAGGAAGAGGAAATTA
131 ATATTAAATGAATAATGCTTTAAAAGGAAGAGGAAATTA
2286963 A
1 A
2286964 TTTAAAAAAT
Statistics
Matches: 158, Mismatches: 10, Indels: 8
0.90 0.06 0.05
Matches are distributed among these distances:
167 4 0.03
168 56 0.35
169 3 0.02
170 1 0.01
172 3 0.02
173 87 0.55
174 4 0.03
ACGTcount: A:0.42, C:0.06, G:0.19, T:0.34
Consensus pattern (169 bp):
ACCATTTTTATTATAGTAACTAAGAGGGCGGAGACGTGAATTTGTGTATATTTAAATGCATTTTT
CTTCGAATTTAAAGGTTAGGAGGAATTAAAAACTAAAAGCAGTATAAAAAAATATTAGTATAAAA
ATATTAAATGAATAATGCTTTAAAAGGAAGAGGAAATTA
Found at i:2293476 original size:27 final size:26
Alignment explanation
Indices: 2293445--2293498 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
2293435 AATGTAAAAC
2293445 TATTTAAATTAAATATTCAAAATTAAT
1 TATTTAAATT-AATATTCAAAATTAAT
*** *
2293472 TATTTTGCTTAATGTTCAAAATTAAT
1 TATTTAAATTAATATTCAAAATTAAT
2293498 T
1 T
2293499 TAATCAAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
26 16 0.70
27 7 0.30
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.48
Consensus pattern (26 bp):
TATTTAAATTAATATTCAAAATTAAT
Found at i:2294546 original size:63 final size:63
Alignment explanation
Indices: 2294472--2294597 Score: 252
Period size: 63 Copynumber: 2.0 Consensus size: 63
2294462 AGTTGTGAAA
2294472 AAATAATGCTAAATGAGATTAATTAGTACATTATTAGTAATTTTCTCCTACGAATTGTTCTTT
1 AAATAATGCTAAATGAGATTAATTAGTACATTATTAGTAATTTTCTCCTACGAATTGTTCTTT
2294535 AAATAATGCTAAATGAGATTAATTAGTACATTATTAGTAATTTTCTCCTACGAATTGTTCTTT
1 AAATAATGCTAAATGAGATTAATTAGTACATTATTAGTAATTTTCTCCTACGAATTGTTCTTT
2294598 CCCCATGATG
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.35, C:0.11, G:0.11, T:0.43
Consensus pattern (63 bp):
AAATAATGCTAAATGAGATTAATTAGTACATTATTAGTAATTTTCTCCTACGAATTGTTCTTT
Found at i:2301296 original size:17 final size:17
Alignment explanation
Indices: 2301275--2301319 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 17
2301265 TCGTCATAGG
2301275 TTTGGTGAGCTCGCA-A
1 TTTGGTGAGCTCGCAGA
2301291 TCTTGGTGAGCTCGCAGA
1 T-TTGGTGAGCTCGCAGA
*
2301309 TATGGTGAGCT
1 TTTGGTGAGCT
2301320 TGTAGTTTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 1 0.04
17 23 0.88
18 2 0.08
ACGTcount: A:0.18, C:0.18, G:0.33, T:0.31
Consensus pattern (17 bp):
TTTGGTGAGCTCGCAGA
Found at i:2319204 original size:22 final size:22
Alignment explanation
Indices: 2319174--2319225 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
2319164 TATTACGTAC
*
2319174 CAGCTTTGAAAAGCAACATCAT
1 CAGCCTTGAAAAGCAACATCAT
2319196 CAGCCTTGAAAAGCAACATCAT
1 CAGCCTTGAAAAGCAACATCAT
2319218 CAGCCTTG
1 CAGCCTTG
2319226 GATAGCTTCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.37, C:0.27, G:0.15, T:0.21
Consensus pattern (22 bp):
CAGCCTTGAAAAGCAACATCAT
Found at i:2324745 original size:33 final size:33
Alignment explanation
Indices: 2324647--2324749 Score: 92
Period size: 33 Copynumber: 3.2 Consensus size: 33
2324637 TTTTAGGCTC
* *
2324647 AGTAGTTAATCTTCTTCACCATTATTAAGGTTT
1 AGTAGTTAGTCTTCTTCACCATTATTAGGGTTT
* * *
2324680 AGTTA-TTAGT-TTTTTCTA--GTT-TT-GGTTGTT
1 AG-TAGTTAGTCTTCTTC-ACCATTATTAGGGT-TT
2324710 AGTAGTTAGTCTTCTTCACCATTATTAGGGTTT
1 AGTAGTTAGTCTTCTTCACCATTATTAGGGTTT
2324743 AGTAGTT
1 AGTAGTT
2324750 GGTATTTTTC
Statistics
Matches: 53, Mismatches: 8, Indels: 18
0.67 0.10 0.23
Matches are distributed among these distances:
29 4 0.08
30 12 0.23
31 7 0.13
32 7 0.13
33 18 0.34
34 5 0.09
ACGTcount: A:0.21, C:0.11, G:0.17, T:0.50
Consensus pattern (33 bp):
AGTAGTTAGTCTTCTTCACCATTATTAGGGTTT
Found at i:2325427 original size:12 final size:12
Alignment explanation
Indices: 2325410--2325437 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
2325400 ATGCTTGTTG
2325410 TTTAGGAATCAC
1 TTTAGGAATCAC
2325422 TTTAGGAATCAC
1 TTTAGGAATCAC
2325434 TTTA
1 TTTA
2325438 TCCCTAAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.39
Consensus pattern (12 bp):
TTTAGGAATCAC
Found at i:2326549 original size:24 final size:24
Alignment explanation
Indices: 2326522--2326571 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 24
2326512 TATGTTCTAA
* *
2326522 TTTTCTCTGTTTTCTCTTCTTTTCT
1 TTTTCTC-ATTTTCTCTTATTTTCT
2326547 TTTTCTCATTTTCTCTTATTTTCT
1 TTTTCTCATTTTCTCTTATTTTCT
2326571 T
1 T
2326572 CCTTTATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 16 0.70
25 7 0.30
ACGTcount: A:0.04, C:0.22, G:0.02, T:0.72
Consensus pattern (24 bp):
TTTTCTCATTTTCTCTTATTTTCT
Found at i:2327362 original size:27 final size:25
Alignment explanation
Indices: 2327304--2327362 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 25
2327294 AAATAAAAAC
2327304 ATTTAAAATAATTATTTTATTTTAT
1 ATTTAAAATAATTATTTTATTTTAT
**
2327329 AAATAAAACTAATTTATTTTTATTTT-T
1 ATTTAAAA-TAA-TTA-TTTTATTTTAT
2327356 ATTTAAA
1 ATTTAAA
2327363 TTTAAATTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
25 6 0.22
26 3 0.11
27 9 0.33
28 9 0.33
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (25 bp):
ATTTAAAATAATTATTTTATTTTAT
Found at i:2328621 original size:17 final size:19
Alignment explanation
Indices: 2328599--2328635 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
2328589 CCAATTCAAA
2328599 ATCAATTT-C-ATATTTTT
1 ATCAATTTACAATATTTTT
2328616 ATCAATTTACAATATTTTT
1 ATCAATTTACAATATTTTT
2328635 A
1 A
2328636 ATTTTATTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 8 0.44
18 1 0.06
19 9 0.50
ACGTcount: A:0.35, C:0.11, G:0.00, T:0.54
Consensus pattern (19 bp):
ATCAATTTACAATATTTTT
Found at i:2330274 original size:13 final size:13
Alignment explanation
Indices: 2330256--2330282 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2330246 TTTGTGAAAA
2330256 TAATATTTTACAT
1 TAATATTTTACAT
2330269 TAATATTTTACAT
1 TAATATTTTACAT
2330282 T
1 T
2330283 GTTATAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (13 bp):
TAATATTTTACAT
Found at i:2331237 original size:20 final size:21
Alignment explanation
Indices: 2331214--2331256 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
2331204 TAGTTTAATT
2331214 AAAATAA-ATACAAAAA-TAAA
1 AAAATAATATA-AAAAATTAAA
2331234 AAAATAATATAAAAAATTAAA
1 AAAATAATATAAAAAATTAAA
2331255 AA
1 AA
2331257 TCAAACCCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (21 bp):
AAAATAATATAAAAAATTAAA
Found at i:2331255 original size:19 final size:19
Alignment explanation
Indices: 2331210--2331257 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
2331200 TAGTTAGTTT
2331210 AATT-AAAATAAATACAAA
1 AATTAAAAATAAATACAAA
*
2331228 AATAAAAAAATAATATA-AAA
1 AAT-TAAAAATAA-ATACAAA
2331248 AATTAAAAAT
1 AATTAAAAAT
2331258 CAAACCCATT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
18 3 0.12
19 6 0.24
20 13 0.52
21 3 0.12
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (19 bp):
AATTAAAAATAAATACAAA
Found at i:2335933 original size:16 final size:16
Alignment explanation
Indices: 2335912--2335959 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
2335902 TAGTATCGTG
2335912 TTGAAAATATTTTTTA
1 TTGAAAATATTTTTTA
*
2335928 TTGAAAATA-TGTTT-
1 TTGAAAATATTTTTTA
*
2335942 TGGAAAATATTTTTTA
1 TTGAAAATATTTTTTA
2335958 TT
1 TT
2335960 TTTTTATGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
14 8 0.31
15 8 0.31
16 10 0.38
ACGTcount: A:0.35, C:0.00, G:0.10, T:0.54
Consensus pattern (16 bp):
TTGAAAATATTTTTTA
Found at i:2339654 original size:15 final size:15
Alignment explanation
Indices: 2339634--2339692 Score: 57
Period size: 15 Copynumber: 3.9 Consensus size: 15
2339624 AAACCCTATT
2339634 TTTCCTTTCTTTTTC
1 TTTCCTTTCTTTTTC
*
2339649 TTTCCTTTCTATTTC
1 TTTCCTTTCTTTTTC
* * *
2339664 GTTTTCATTCTCTGTTC
1 -TTTCCTTTCT-TTTTC
2339681 TTT-CTTTCTTTT
1 TTTCCTTTCTTTT
2339693 ATTTATTTAT
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
14 2 0.06
15 19 0.54
16 11 0.31
17 3 0.09
ACGTcount: A:0.03, C:0.24, G:0.03, T:0.69
Consensus pattern (15 bp):
TTTCCTTTCTTTTTC
Found at i:2339707 original size:12 final size:13
Alignment explanation
Indices: 2339685--2339726 Score: 50
Period size: 12 Copynumber: 3.2 Consensus size: 13
2339675 CTGTTCTTTC
*
2339685 TTTCTTTTATTTA
1 TTTCATTTATTTA
2339698 TTT-ATTTATTTA
1 TTTCATTTATTTA
*
2339710 TTTCTTTTACTTTA
1 TTTCATTTA-TTTA
2339724 TTT
1 TTT
2339727 TAATTTTACT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 11 0.44
13 7 0.28
14 7 0.28
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTCATTTATTTA
Found at i:2339735 original size:16 final size:16
Alignment explanation
Indices: 2339714--2339744 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
2339704 TATTTATTTC
2339714 TTTTACTTTATTTTAA
1 TTTTACTTTATTTTAA
2339730 TTTTACTTTATTTTA
1 TTTTACTTTATTTTA
2339745 TGCTTTATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTTACTTTATTTTAA
Found at i:2339770 original size:16 final size:15
Alignment explanation
Indices: 2339749--2339795 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 15
2339739 ATTTTATGCT
2339749 TTATTATATTATTAAA
1 TTATTATA-TATTAAA
* *
2339765 TTATTATAATAATATA
1 TTATTAT-ATATTAAA
2339781 TTA-TATATATTAAA
1 TTATTATATATTAAA
2339795 T
1 T
2339796 ATCTTATACT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
14 7 0.27
15 3 0.12
16 15 0.58
17 1 0.04
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TTATTATATATTAAA
Found at i:2350951 original size:3 final size:3
Alignment explanation
Indices: 2350943--2350974 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
2350933 GATTTAGTCC
2350943 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
2350975 CCTATTTGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:2370634 original size:46 final size:46
Alignment explanation
Indices: 2370567--2370875 Score: 145
Period size: 44 Copynumber: 6.7 Consensus size: 46
2370557 ATTATACAGG
* *
2370567 TCTTATCTCCCTGAGATTACAGTGGAGTAGACCGAAGAATTTCAGA
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGACCGAAGAATTTCAGA
** * *
2370613 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCA---GAGA
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGACCGAAG-AATTTCAGA
* * * * ** * *
2370657 TCTTATCTCTCTGAGATTACAGCGGAGTAGATTGAAG-CTAGT-A-A
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGACCGAAGAAT-TTCAGA
* * * * ** **
2370701 TCCTATCTCTCTGAAGTTACAGTGGAGCGGA-TTAA-AA-TAAAGGA
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGACCGAAGAATTTCA-GA
* * * * *
2370745 TCTTATCTCTCTGAAGTTACAGTAGAGTAGATCAC-ATCAG-ATTGAAGCCAGAGA
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGA-C-CGA--AGAATT----TC--AGA
* * * *
2370799 TCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAAAATTTTAGA
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGACCGAAGAATTTCAGA
2370845 TCTTATCTCCCTGAGGTTACAGTGGAGCAGA
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGA
2370876 TTGAAGCCAG
Statistics
Matches: 200, Mismatches: 39, Indels: 48
0.70 0.14 0.17
Matches are distributed among these distances:
42 1 0.00
43 3 0.01
44 90 0.45
45 1 0.00
46 66 0.33
47 1 0.00
48 2 0.01
49 1 0.00
51 1 0.00
52 4 0.02
53 2 0.01
54 27 0.14
55 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (46 bp):
TCTTATCTCCCTGAGGTTACAGTGGAGCAGACCGAAGAATTTCAGA
Found at i:2370677 original size:44 final size:43
Alignment explanation
Indices: 2370610--2371008 Score: 266
Period size: 44 Copynumber: 8.8 Consensus size: 43
2370600 GAAGAATTTC
* * *
2370610 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
1 AGATCTTATCTCTCTGA-ATTACAGTGGAGCAGATTGAAGCTAG
* *
2370654 AGATCTTATCTCTCTGAGATTACAGCGGAGTAGATTGAAGCTAG
1 AGATCTTATCTCTCTGA-ATTACAGTGGAGCAGATTGAAGCTAG
* * ** *
2370698 TA-ATCCTATCTCTCTGAAGTTACAGTGGAGCGGATT-AAAATAA
1 -AGATCTTATCTCTCTGAA-TTACAGTGGAGCAGATTGAAGCTAG
*
2370741 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGATTGAAGCCAG
1 A-GATCTTATCTCTCTGAA-TTACAGT-G-G-AG-------CAGATTGAAGCTAG
* * ** ** **
2370796 AGATCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAAAATTTT
1 AGATCTTATCTCTCTGA-ATTACAGTGGAGCAGATTG--AAGCTAG
* * *
2370842 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
1 AGATCTTATCTCTCTGA-ATTACAGTGGAGCAGATTGAAGCTAG
* *
2370886 AGATCTTATCTCTCTGAAATTACAGCGGAGTAGATTGAAGCTAG
1 AGATCTTATCTCTCTG-AATTACAGTGGAGCAGATTGAAGCTAG
* * ** *
2370930 TA-ATCCTATCTCTCTGAAGTTACAGTGGAGCGGATT-AAAATAA
1 -AGATCTTATCTCTCTGAA-TTACAGTGGAGCAGATTGAAGCTAG
* *
2370973 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGAT
1 A-GATCTTATCTCTCTGAA-TTACAGTGGAGCAGAT
2371009 CACATCAGAT
Statistics
Matches: 280, Mismatches: 52, Indels: 46
0.74 0.14 0.12
Matches are distributed among these distances:
42 2 0.01
43 11 0.04
44 190 0.68
45 4 0.01
46 36 0.13
47 2 0.01
51 1 0.00
52 1 0.00
53 1 0.00
54 27 0.10
55 5 0.02
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.29
Consensus pattern (43 bp):
AGATCTTATCTCTCTGAATTACAGTGGAGCAGATTGAAGCTAG
Found at i:2370752 original size:88 final size:90
Alignment explanation
Indices: 2370567--2370777 Score: 225
Period size: 88 Copynumber: 2.4 Consensus size: 90
2370557 ATTATACAGG
* * * * *
2370567 TCTTATCTCCCTGAGATTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTA
1 TCTTATCTCTCTGAGATTACAGTGGAGTAGATCGAAGAATGTCAGATCCTATCTCCCTGAAGTTA
* **
2370632 CAGTGGAGCAGATTGAAGCCAGAGA
66 CAGTGGAGCAGATTAAAGAAAGAGA
* * * *
2370657 TCTTATCTCTCTGAGATTACAGCGGAGTAGATTGAAG-CTAGT-A-ATCCTATCTCTCTGAAGTT
1 TCTTATCTCTCTGAGATTACAGTGGAGTAGATCGAAGAAT-GTCAGATCCTATCTCCCTGAAGTT
* *
2370719 ACAGTGGAGCGGATTAAAATAAAG-GA
65 ACAGTGGAGCAGATT-AAAGAAAGAGA
*
2370745 TCTTATCTCTCTGA-AGTTACAGTAGAGTAGATC
1 TCTTATCTCTCTGAGA-TTACAGTGGAGTAGATC
2370778 ACATCAGATT
Statistics
Matches: 101, Mismatches: 17, Indels: 8
0.80 0.13 0.06
Matches are distributed among these distances:
87 1 0.01
88 60 0.59
89 6 0.06
90 34 0.34
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (90 bp):
TCTTATCTCTCTGAGATTACAGTGGAGTAGATCGAAGAATGTCAGATCCTATCTCCCTGAAGTTA
CAGTGGAGCAGATTAAAGAAAGAGA
Found at i:2370917 original size:144 final size:142
Alignment explanation
Indices: 2370640--2370920 Score: 339
Period size: 144 Copynumber: 2.0 Consensus size: 142
2370630 TACAGTGGAG
* ** ** **
2370640 CAGATTGAAGCCAGAGATCTTATCTCTCTGAGATTACAGCGGAGTAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCGGAACAGACCGAAAATAGTAATCCT
* * * * *
2370705 ATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
66 ATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACAAAGGATCTTATCTCTCTGAAATTACAGCAG
2370770 AGTAGATCACAT
131 AGTAGATCACAT
* **
2370782 CAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAAAATTTTAGATC
1 CAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCGGAACAGACCG-AAAATAGTA-ATC
* * * * *
2370847 TTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGC-CAGAGATCTTATCTCTCTGAAATTACAG
64 CTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACAAAG-GATCTTATCTCTCTGAAATTACAG
*
2370911 CGGAGTAGAT
128 CAGAGTAGAT
2370921 TGAAGCTAGT
Statistics
Matches: 115, Mismatches: 21, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
142 45 0.39
143 7 0.06
144 63 0.55
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (142 bp):
CAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCGGAACAGACCGAAAATAGTAATCCT
ATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACAAAGGATCTTATCTCTCTGAAATTACAGCAG
AGTAGATCACAT
Found at i:2370973 original size:232 final size:232
Alignment explanation
Indices: 2370567--2371068 Score: 925
Period size: 232 Copynumber: 2.2 Consensus size: 232
2370557 ATTATACAGG
** *
2370567 TCTTATCTCCCTGAGATTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAAAATTTCAGATCTTATCTCCCTGAGGTTA
*
2370632 CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTGAGATTACAGCGGAGTAGATTGAAGCTA
66 CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTGAAATTACAGCGGAGTAGATTGAAGCTA
2370697 GTAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGT
131 GTAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGT
2370762 TACAGTAGAGTAGATCACATCAGATTGAAGCCAGAGA
196 TACAGTAGAGTAGATCACATCAGATTGAAGCCAGAGA
*
2370799 TCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAAAATTTTAGATCTTATCTCCCTGAGGTTA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAAAATTTCAGATCTTATCTCCCTGAGGTTA
2370864 CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTGAAATTACAGCGGAGTAGATTGAAGCTA
66 CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTGAAATTACAGCGGAGTAGATTGAAGCTA
2370929 GTAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGT
131 GTAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGT
2370994 TACAGTAGAGTAGATCACATCAGATTGAAGCCAGAGA
196 TACAGTAGAGTAGATCACATCAGATTGAAGCCAGAGA
* *
2371031 TCTTATCTCCCTGATG-TTGCAGTGGAACAGACTGAAAA
1 TCTTATCTCCCTGA-GATTACAGTGGAACAGACCGAAAA
2371069 CATAAATTTC
Statistics
Matches: 262, Mismatches: 7, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
232 261 1.00
233 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.28
Consensus pattern (232 bp):
TCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAAAATTTCAGATCTTATCTCCCTGAGGTTA
CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTGAAATTACAGCGGAGTAGATTGAAGCTA
GTAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGT
TACAGTAGAGTAGATCACATCAGATTGAAGCCAGAGA
Found at i:2374996 original size:16 final size:16
Alignment explanation
Indices: 2374972--2375030 Score: 55
Period size: 16 Copynumber: 3.7 Consensus size: 16
2374962 GGTTGGGGGG
*
2374972 AATGTAATAGAATTGT
1 AATGGAATAGAATTGT
*** *
2374988 AATGGAATAGGGCTGC
1 AATGGAATAGAATTGT
*
2375004 AATTGAATAGAATTGT
1 AATGGAATAGAATTGT
*
2375020 AATAGAATAGA
1 AATGGAATAGA
2375031 GCTGCAATAA
Statistics
Matches: 32, Mismatches: 11, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.44, C:0.03, G:0.24, T:0.29
Consensus pattern (16 bp):
AATGGAATAGAATTGT
Found at i:2375018 original size:32 final size:32
Alignment explanation
Indices: 2374977--2375038 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
2374967 GGGGGAATGT
* *
2374977 AATAGAATTGTAATGGAATAGGGCTGCAATTG
1 AATAGAATTGTAATAGAATAGAGCTGCAATTG
2375009 AATAGAATTGTAATAGAATAGAGCTGCAAT
1 AATAGAATTGTAATAGAATAGAGCTGCAAT
2375039 AATAATTCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.42, C:0.06, G:0.24, T:0.27
Consensus pattern (32 bp):
AATAGAATTGTAATAGAATAGAGCTGCAATTG
Found at i:2375039 original size:16 final size:16
Alignment explanation
Indices: 2374992--2375039 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
2374982 AATTGTAATG
* *
2374992 GAATAGGGCTGCAATT
1 GAATAGAGCTGCAATA
** *
2375008 GAATAGAATTGTAATA
1 GAATAGAGCTGCAATA
2375024 GAATAGAGCTGCAATA
1 GAATAGAGCTGCAATA
2375040 ATAATTCAAT
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.42, C:0.08, G:0.25, T:0.25
Consensus pattern (16 bp):
GAATAGAGCTGCAATA
Found at i:2379212 original size:24 final size:24
Alignment explanation
Indices: 2379185--2379230 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
2379175 TGGCTGGTGG
*
2379185 TTCTGGTGGTGCCCAAGGTGGTTC
1 TTCTGGAGGTGCCCAAGGTGGTTC
*
2379209 TTCTGGAGGTGCTCAAGGTGGT
1 TTCTGGAGGTGCCCAAGGTGGT
2379231 GACCAGGCCC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.11, C:0.17, G:0.39, T:0.33
Consensus pattern (24 bp):
TTCTGGAGGTGCCCAAGGTGGTTC
Found at i:2380253 original size:321 final size:321
Alignment explanation
Indices: 2379671--2380314 Score: 1288
Period size: 321 Copynumber: 2.0 Consensus size: 321
2379661 ATTTCTTCGA
2379671 AAGGGGAGTACAGAGTCTTTGGTAACAAGAATTGCCTTAAAAAGGGGAGCTAAGGTAGGGGTGTG
1 AAGGGGAGTACAGAGTCTTTGGTAACAAGAATTGCCTTAAAAAGGGGAGCTAAGGTAGGGGTGTG
2379736 CATAATTCGGGTAAAACCGAAAAAATTCGGTTAACCGACCGAATTCGGTTAATCGGTCGGTTAAC
66 CATAATTCGGGTAAAACCGAAAAAATTCGGTTAACCGACCGAATTCGGTTAATCGGTCGGTTAAC
2379801 CGAATTTTTTCGGTCGGGGGTCGGTTAATTTTTTTATGATTTTTCGGTTAACGGTTAATTCGGTT
131 CGAATTTTTTCGGTCGGGGGTCGGTTAATTTTTTTATGATTTTTCGGTTAACGGTTAATTCGGTT
2379866 CGAAACCGGTCGGTTAATCGAAAATTTTCGGTTAACCGAAAAAATTAATAAATAAAATTATCCAA
196 CGAAACCGGTCGGTTAATCGAAAATTTTCGGTTAACCGAAAAAATTAATAAATAAAATTATCCAA
2379931 CCCAACCCAAACTCAATTACCCAACCCAATAAAACTAAAACTAAAGTTTACCCAATTACCC
261 CCCAACCCAAACTCAATTACCCAACCCAATAAAACTAAAACTAAAGTTTACCCAATTACCC
2379992 AAGGGGAGTACAGAGTCTTTGGTAACAAGAATTGCCTTAAAAAGGGGAGCTAAGGTAGGGGTGTG
1 AAGGGGAGTACAGAGTCTTTGGTAACAAGAATTGCCTTAAAAAGGGGAGCTAAGGTAGGGGTGTG
2380057 CATAATTCGGGTAAAACCGAAAAAATTCGGTTAACCGACCGAATTCGGTTAATCGGTCGGTTAAC
66 CATAATTCGGGTAAAACCGAAAAAATTCGGTTAACCGACCGAATTCGGTTAATCGGTCGGTTAAC
2380122 CGAATTTTTTCGGTCGGGGGTCGGTTAATTTTTTTATGATTTTTCGGTTAACGGTTAATTCGGTT
131 CGAATTTTTTCGGTCGGGGGTCGGTTAATTTTTTTATGATTTTTCGGTTAACGGTTAATTCGGTT
2380187 CGAAACCGGTCGGTTAATCGAAAATTTTCGGTTAACCGAAAAAATTAATAAATAAAATTATCCAA
196 CGAAACCGGTCGGTTAATCGAAAATTTTCGGTTAACCGAAAAAATTAATAAATAAAATTATCCAA
2380252 CCCAACCCAAACTCAATTACCCAACCCAATAAAACTAAAACTAAAGTTTACCCAATTACCC
261 CCCAACCCAAACTCAATTACCCAACCCAATAAAACTAAAACTAAAGTTTACCCAATTACCC
2380313 AA
1 AA
2380315 TCCAATAAAA
Statistics
Matches: 323, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
321 323 1.00
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (321 bp):
AAGGGGAGTACAGAGTCTTTGGTAACAAGAATTGCCTTAAAAAGGGGAGCTAAGGTAGGGGTGTG
CATAATTCGGGTAAAACCGAAAAAATTCGGTTAACCGACCGAATTCGGTTAATCGGTCGGTTAAC
CGAATTTTTTCGGTCGGGGGTCGGTTAATTTTTTTATGATTTTTCGGTTAACGGTTAATTCGGTT
CGAAACCGGTCGGTTAATCGAAAATTTTCGGTTAACCGAAAAAATTAATAAATAAAATTATCCAA
CCCAACCCAAACTCAATTACCCAACCCAATAAAACTAAAACTAAAGTTTACCCAATTACCC
Found at i:2380452 original size:9 final size:9
Alignment explanation
Indices: 2380436--2380478 Score: 77
Period size: 9 Copynumber: 4.8 Consensus size: 9
2380426 GGTATTTTTC
2380436 GGTAATTCG
1 GGTAATTCG
*
2380445 GTTAATTCG
1 GGTAATTCG
2380454 GGTAATTCG
1 GGTAATTCG
2380463 GGTAATTCG
1 GGTAATTCG
2380472 GGTAATT
1 GGTAATT
2380479 TTAACAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.23, C:0.09, G:0.30, T:0.37
Consensus pattern (9 bp):
GGTAATTCG
Found at i:2383660 original size:37 final size:37
Alignment explanation
Indices: 2383610--2383686 Score: 154
Period size: 37 Copynumber: 2.1 Consensus size: 37
2383600 ATTATAAATA
2383610 TATAAAAAATTTGAACTCATTGATTTTAATATTAAAC
1 TATAAAAAATTTGAACTCATTGATTTTAATATTAAAC
2383647 TATAAAAAATTTGAACTCATTGATTTTAATATTAAAC
1 TATAAAAAATTTGAACTCATTGATTTTAATATTAAAC
2383684 TAT
1 TAT
2383687 TTAATATCAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.42
Consensus pattern (37 bp):
TATAAAAAATTTGAACTCATTGATTTTAATATTAAAC
Found at i:2384190 original size:19 final size:17
Alignment explanation
Indices: 2384156--2384200 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
2384146 CTAAAATAGT
2384156 AACAAAATTAACAATAA
1 AACAAAATTAACAATAA
*
2384173 AACAAAAGTTATACAATAGC
1 AACAAAA-TTA-ACAATA-A
2384193 AACAAAAT
1 AACAAAAT
2384201 AGTAGCATCA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 7 0.29
18 3 0.12
19 7 0.29
20 7 0.29
ACGTcount: A:0.64, C:0.13, G:0.04, T:0.18
Consensus pattern (17 bp):
AACAAAATTAACAATAA
Found at i:2388376 original size:13 final size:13
Alignment explanation
Indices: 2388358--2388391 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
2388348 CCCAGGGGAC
2388358 ACATGACCGTGCA
1 ACATGACCGTGCA
2388371 ACATGACCGTGCA
1 ACATGACCGTGCA
2388384 ACATGACC
1 ACATGACC
2388392 ATGTGTCGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.32, C:0.32, G:0.21, T:0.15
Consensus pattern (13 bp):
ACATGACCGTGCA
Found at i:2388618 original size:10 final size:10
Alignment explanation
Indices: 2388599--2388645 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
2388589 TTCTCAACTC
2388599 ATCA-ACCAA
1 ATCATACCAA
2388608 ATCATACCAA
1 ATCATACCAA
*
2388618 ATCTAAACCAAA
1 ATC-ATACC-AA
2388630 ATCATACCAA
1 ATCATACCAA
*
2388640 AACATA
1 ATCATA
2388646 TGTTCCATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
9 4 0.12
10 15 0.47
11 8 0.25
12 5 0.16
ACGTcount: A:0.55, C:0.28, G:0.00, T:0.17
Consensus pattern (10 bp):
ATCATACCAA
Found at i:2389467 original size:40 final size:40
Alignment explanation
Indices: 2389363--2389499 Score: 141
Period size: 40 Copynumber: 3.3 Consensus size: 40
2389353 TAGAATATCA
* *
2389363 CACACTTAGTGCCATCATATTAAACCGAAACTA-TCTCAATACTG
1 CACACTTAGTGCCA-CATA-T-AGCCGAAACTATTC-CAATTC-G
2389407 CACACTTAGTGCCACATATAGCCGAAACTATTCCAATTCG
1 CACACTTAGTGCCACATATAGCCGAAACTATTCCAATTCG
* ** * * *
2389447 CACACTTAGTGCTATTTATAGCCGAAGCTATTTCAAATCG
1 CACACTTAGTGCCACATATAGCCGAAACTATTCCAATTCG
*
2389487 CACACCTAGTGCC
1 CACACTTAGTGCC
2389500 GAACATAATC
Statistics
Matches: 82, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
40 46 0.56
41 15 0.18
42 3 0.04
43 4 0.05
44 14 0.17
ACGTcount: A:0.32, C:0.28, G:0.12, T:0.27
Consensus pattern (40 bp):
CACACTTAGTGCCACATATAGCCGAAACTATTCCAATTCG
Found at i:2389793 original size:21 final size:22
Alignment explanation
Indices: 2389769--2389809 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
2389759 ATATTTAGGG
2389769 CATTTTACAA-ATTAGTCCCCA
1 CATTTTACAACATTAGTCCCCA
* *
2389790 CATTTTTCAACTTTAGTCCC
1 CATTTTACAACATTAGTCCC
2389810 TATTTCATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.27, C:0.29, G:0.05, T:0.39
Consensus pattern (22 bp):
CATTTTACAACATTAGTCCCCA
Found at i:2389927 original size:106 final size:107
Alignment explanation
Indices: 2389799--2390009 Score: 397
Period size: 107 Copynumber: 2.0 Consensus size: 107
2389789 ACATTTTTCA
2389799 ACTTTAGTCCCTATTTCATAAAATCA-CAAAATACACAAAATTCATCAAAACCATGCCTTAGCCG
1 ACTTTAGTCCCTATTTCATAAAATCATCAAAATACACAAAATTCATCAAAACCATGCCTTAGCCG
*
2389863 AACCTTCCTATGGTCTCTAGCAACCCATAACTTTTATTTAAC
66 AACCTTCCTATGGTCTCTAGCAACCCATAACATTTATTTAAC
2389905 ACTTTAGTCCCTATTTCATAAAATCATCAAAATACACAAAATTCATCAAAACCATGCCTTAGCCG
1 ACTTTAGTCCCTATTTCATAAAATCATCAAAATACACAAAATTCATCAAAACCATGCCTTAGCCG
*
2389970 AACCTTCCTATGGTCTCTAGCAATCCATAACATTTATTTA
66 AACCTTCCTATGGTCTCTAGCAACCCATAACATTTATTTA
2390010 TTTTACATTT
Statistics
Matches: 102, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
106 26 0.25
107 76 0.75
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.31
Consensus pattern (107 bp):
ACTTTAGTCCCTATTTCATAAAATCATCAAAATACACAAAATTCATCAAAACCATGCCTTAGCCG
AACCTTCCTATGGTCTCTAGCAACCCATAACATTTATTTAAC
Found at i:2390783 original size:16 final size:15
Alignment explanation
Indices: 2390749--2390784 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
2390739 ACAACTAAAG
*
2390749 AAAAATGAATATTGT
1 AAAAATGAATATCGT
*
2390764 AAAAATGAATGTCGT
1 AAAAATGAATATCGT
2390779 AAAAAT
1 AAAAAT
2390785 CTTGATTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.56, C:0.03, G:0.14, T:0.28
Consensus pattern (15 bp):
AAAAATGAATATCGT
Found at i:2392066 original size:25 final size:23
Alignment explanation
Indices: 2392020--2392063 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
2392010 ATTTTTTATA
*
2392020 TTAAAAGAATTATATTATAAATC
1 TTAAAAAAATTATATTATAAATC
2392043 TTAAAAAAATTATATTATAAA
1 TTAAAAAAATTATATTATAAA
2392064 AATAATTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (23 bp):
TTAAAAAAATTATATTATAAATC
Found at i:2393304 original size:131 final size:127
Alignment explanation
Indices: 2393059--2393384 Score: 304
Period size: 127 Copynumber: 2.6 Consensus size: 127
2393049 ATCAAACGAG
** * * * * * * *
2393059 AAAAATCGAAACCCAGTACGTTAGGGCACGATCTCTCGAATTTCCAAATA-CAAAATATTGCCTT
1 AAAAATCGAAACCCAACACATTAGGGCACAATCCCTCGAATTCCCAAACATC-AAACATCGCCTT
* * * **
2393123 GTTTTTTAAAG---A-AAAATGTGGACGAAATTTTAAAGGGATGTTTGATTATTTGGATAAACAA
65 -TGTTTTAAAGTTTAGAAAATGCGGACGAAATTTCAAAGGGAAATTTGATTA-TT---TAAACAA
2393184 AAA
125 AAA
* * * * *
2393187 AAAAATCGAAGCCCAACACATTAGGGCACAATTTCC-CGAATTCCCAAACATCAAGCGTCGCTTT
1 AAAAATCGAAACCCAACACATTAGGGCACAA-TCCCTCGAATTCCCAAACATCAAACATCGCCTT
* * **
2393251 TGTTTTAAAGTTTAGAAAATGCGGACGAGATTTCAAAGGGAAATTTGATTATTTAAATAAACG
65 TGTTTTAAAGTTTAGAAAATGCGGACGAAATTTCAAAGGGAAATTTGATTATTTAAACAAAAA
* * * *
2393314 AAAGATCGAAACCCAACACATTAGGGCACGATCCCTCGAATTTCTAAACATCAAACATCGCCTTT
1 AAAAATCGAAACCCAACACATTAGGGCACAATCCCTCGAATTCCCAAACATCAAACATCGCCTTT
2393379 GTTTTA
66 GTTTTA
2393385 TTTAAAATTA
Statistics
Matches: 159, Mismatches: 32, Indels: 15
0.77 0.16 0.07
Matches are distributed among these distances:
126 3 0.02
127 74 0.47
128 45 0.28
129 3 0.02
130 3 0.02
131 31 0.19
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (127 bp):
AAAAATCGAAACCCAACACATTAGGGCACAATCCCTCGAATTCCCAAACATCAAACATCGCCTTT
GTTTTAAAGTTTAGAAAATGCGGACGAAATTTCAAAGGGAAATTTGATTATTTAAACAAAAA
Found at i:2393861 original size:17 final size:18
Alignment explanation
Indices: 2393835--2393877 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
2393825 CGAATAAATA
*
2393835 AATAATAATAA-AATGAT
1 AATAAAAATAATAATGAT
*
2393852 AATAAAAATAATGATGAT
1 AATAAAAATAATAATGAT
*
2393870 AACAAAAA
1 AATAAAAA
2393878 CCTAATATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 10 0.45
18 12 0.55
ACGTcount: A:0.67, C:0.02, G:0.07, T:0.23
Consensus pattern (18 bp):
AATAAAAATAATAATGAT
Found at i:2396172 original size:26 final size:26
Alignment explanation
Indices: 2396143--2396250 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
2396133 TGATACAAAT
2396143 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
2396169 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
2396195 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
2396221 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
2396247 TGAT
1 TGAT
2396251 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:2401042 original size:17 final size:17
Alignment explanation
Indices: 2401020--2401066 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
2401010 TATAGCACCT
2401020 AAAATATAATA-ATAATG
1 AAAATATAATAGATAA-G
2401037 AAAATATAAATAGATAAG
1 AAAATAT-AATAGATAAG
2401055 -AAATATAATAGA
1 AAAATATAATAGA
2401067 GGAGTAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
16 6 0.21
17 13 0.46
18 5 0.18
19 4 0.14
ACGTcount: A:0.66, C:0.00, G:0.09, T:0.26
Consensus pattern (17 bp):
AAAATATAATAGATAAG
Found at i:2401160 original size:3 final size:3
Alignment explanation
Indices: 2401139--2401495 Score: 174
Period size: 3 Copynumber: 119.3 Consensus size: 3
2401129 TAATTACAAA
* * * * * *
2401139 AAT AAT GAT GAT AAC AAT AAT AAT AAT AGT AAT AAT AAC AAT AAT GAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* ** ** * *
2401187 AAT AAAT ATT AGC GGT AAA AAT AAT AAT GAT AAT AAT AAT ATAT AA-
1 AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT
* * * * * * * *
2401233 AAT AAT ACT AAG AAT AGT AA- AA- AAA AGAT AAT GAG AAT AAC CAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT
* * * *
2401277 AAT AAT AAT GAT AAT AAAT AAT AGT AGT AAAT AAT AAA AAT AAT AAT
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT
** * * * * * * *
2401324 GGT AAT AAT GAG AAG ATT AAT AAT AGA- AAT GAT AGT AAT AGAA AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT A-AT AAT
* ** ** * *
2401370 AA- AA- AAA AAT -AT AAT AAT AGC AAT AGC AAT AAA AAT AAA AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
2401415 AAT CAT AAT AAT AAT AA- AAT AGT AAT AA- AGAT CAT AGT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT
2401459 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
2401496 TCAATAAATA
Statistics
Matches: 260, Mismatches: 79, Indels: 30
0.70 0.21 0.08
Matches are distributed among these distances:
2 16 0.06
3 228 0.88
4 16 0.06
ACGTcount: A:0.62, C:0.03, G:0.08, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:2403237 original size:63 final size:63
Alignment explanation
Indices: 2403158--2403310 Score: 209
Period size: 63 Copynumber: 2.4 Consensus size: 63
2403148 TAAATATCTC
* * *
2403158 TTACACGGCCTGGACACATGCCCGTG-TCTCTGGCCCATATGACTCTAATTCACAAATAGTGAG
1 TTACACGGCCTAGACACATGCCCGTGTTC-CTAGCCCATATGACTCTAATTCACAAACAGTGAG
* * * * *
2403221 TTACACGGCTTAGACACACGTCCGTGTTCCTAGCTCATGTGACTCTAATTCACAAACAGTGAG
1 TTACACGGCCTAGACACATGCCCGTGTTCCTAGCCCATATGACTCTAATTCACAAACAGTGAG
*
2403284 TTACATGGCCTAGACACATGCCCGTGT
1 TTACACGGCCTAGACACATGCCCGTGT
2403311 GACTTTAATT
Statistics
Matches: 77, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
63 75 0.97
64 2 0.03
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.26
Consensus pattern (63 bp):
TTACACGGCCTAGACACATGCCCGTGTTCCTAGCCCATATGACTCTAATTCACAAACAGTGAG
Found at i:2404914 original size:21 final size:20
Alignment explanation
Indices: 2404868--2404921 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
2404858 AATTATTTGT
* *
2404868 TTAATAACTTTTTTTATCATG
1 TTAATAA-TTTTTTTATAATA
*
2404889 GTAATAATTTTTTTATAATAA
1 TTAATAATTTTTTTATAAT-A
2404910 TTAAT-ATTTTTT
1 TTAATAATTTTTT
2404922 AAAAAATATA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
20 18 0.64
21 10 0.36
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.59
Consensus pattern (20 bp):
TTAATAATTTTTTTATAATA
Found at i:2415369 original size:17 final size:18
Alignment explanation
Indices: 2415349--2415384 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
2415339 TAATCAAATT
2415349 TAATTATTATATT-TTTA
1 TAATTATTATATTATTTA
2415366 TAATTATTATATTATTTA
1 TAATTATTATATTATTTA
2415384 T
1 T
2415385 TAAGTATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
TAATTATTATATTATTTA
Done.