Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold129
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: 3652842
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 48564 characters in sequence are not A, C, G, or T
File 14 of 23
Found at i:2170598 original size:13 final size:13
Alignment explanation
Indices: 2170580--2170605 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2170570 TGCCTTTACG
2170580 ATTTTTGAAAATA
1 ATTTTTGAAAATA
2170593 ATTTTTGAAAATA
1 ATTTTTGAAAATA
2170606 TGAATGCGAA
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:0.08, T:0.46
Consensus pattern (13 bp):
ATTTTTGAAAATA
Found at i:2170957 original size:94 final size:94
Alignment explanation
Indices: 2170823--2170996 Score: 251
Period size: 94 Copynumber: 1.9 Consensus size: 94
2170813 ATCCACTCAG
* * *
2170823 AAGAATAGGTTAGAGTGTCCCCGACAAAGATATTTTAGGCAAAAATA-AGAAGTATCTTGATAAA
1 AAGAATAGGTTAGAGTGTCCCCAACAAAGATATTTTAGGCAAAAATAGA-AAGTATCTTAACAAA
2170887 TTTAAAAATAGGGTTGAAGTATCTCCTCGA
65 TTTAAAAATAGGGTTGAAGTATCTCCTCGA
* * * * * *
2170917 AAGAATGGGTTGGAGTGTCCCCAATAATGATATTTTAGGCAAAAATAGAAAGTTTCTTAACAAGT
1 AAGAATAGGTTAGAGTGTCCCCAACAAAGATATTTTAGGCAAAAATAGAAAGTATCTTAACAAAT
2170982 TTAAAAATAGGGTTG
66 TTAAAAATAGGGTTG
2170997 GAGTGTCCCC
Statistics
Matches: 70, Mismatches: 9, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
94 69 0.99
95 1 0.01
ACGTcount: A:0.40, C:0.10, G:0.21, T:0.29
Consensus pattern (94 bp):
AAGAATAGGTTAGAGTGTCCCCAACAAAGATATTTTAGGCAAAAATAGAAAGTATCTTAACAAAT
TTAAAAATAGGGTTGAAGTATCTCCTCGA
Found at i:2185095 original size:166 final size:165
Alignment explanation
Indices: 2184821--2185165 Score: 426
Period size: 166 Copynumber: 2.1 Consensus size: 165
2184811 AATGTAATTA
*
2184821 AGTCCCTAAATTTTTGAAATTACATTTCATACCCGATAGAAAACCAAAAAGGTACGAAAAGTTTT
1 AGTCCCTAAACTTTTGAAATTACATTTCATACCCGATAGAAAACCAAAAAGGTACGAAAAGTTTT
* * * ** * *
2184886 GAAAATTTTTTTACCCTTATGGAAGGCCATAGGAATAATAGAAATTTTAAGAAAATGACTACGAT
66 GAAAATTTCTATACCCTAACAGAAGGCCATAGGAATAATAGAAATTTAAAGAAAATGACTAAGAT
* * *
2184951 TATAATTTTTCTTCTAAAAACC-AAATTTGTTATTT
131 GATAATTTTGCTT-TAAAAACCTAAATTTGCTATTT
* * * * *
2184986 GGTCCCTAAACTTTTGAAAACTT-CATTTCATACCCGATGGAAAACC-GAGAGGATATGAAAAGT
1 AGTCCCTAAACTTTTG-AAA-TTACATTTCATACCCGATAGAAAACCAAAAAGG-TACGAAAAGT
* *
2185049 TTTGAAAATTTCTATACTCTAACAGAAGGCCATAGGAATAATAGAAATTTAAAGAAATTGACTAA
63 TTTGAAAATTTCTATACCCTAACAGAAGGCCATAGGAATAATAGAAATTTAAAGAAAATGACTAA
* * * *
2185114 GGTGATGATTTTGCTTTTAAAGCCTAAATTTGCTATTT
128 GATGATAATTTTGCTTTAAAAACCTAAATTTGCTATTT
*
2185152 AATCCCTAAACTTT
1 AGTCCCTAAACTTT
2185166 CTAAAGAATT
Statistics
Matches: 152, Mismatches: 24, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
165 24 0.16
166 126 0.83
167 2 0.01
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.33
Consensus pattern (165 bp):
AGTCCCTAAACTTTTGAAATTACATTTCATACCCGATAGAAAACCAAAAAGGTACGAAAAGTTTT
GAAAATTTCTATACCCTAACAGAAGGCCATAGGAATAATAGAAATTTAAAGAAAATGACTAAGAT
GATAATTTTGCTTTAAAAACCTAAATTTGCTATTT
Found at i:2185159 original size:20 final size:19
Alignment explanation
Indices: 2185123--2185161 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
2185113 AGGTGATGAT
*
2185123 TTTGCTTTTAAAGCCTAAA
1 TTTGCTTTTAAACCCTAAA
*
2185142 TTTGCTATTTAATCCCTAAA
1 TTTGCT-TTTAAACCCTAAA
2185162 CTTTCTAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.31, C:0.18, G:0.08, T:0.44
Consensus pattern (19 bp):
TTTGCTTTTAAACCCTAAA
Found at i:2185382 original size:27 final size:26
Alignment explanation
Indices: 2185352--2185404 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
2185342 ATTAATTGAT
2185352 TTAATTAATTAAAAA-TAATTAAAAATA
1 TTAA-TAA-TAAAAATTAATTAAAAATA
2185379 TTAATAATAAAAATTTAATTAAAAAT
1 TTAATAATAAAAA-TTAATTAAAAAT
2185405 TTATATGTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
25 6 0.25
26 3 0.12
27 15 0.62
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (26 bp):
TTAATAATAAAAATTAATTAAAAATA
Found at i:2185386 original size:16 final size:14
Alignment explanation
Indices: 2185365--2185407 Score: 54
Period size: 12 Copynumber: 3.1 Consensus size: 14
2185355 ATTAATTAAA
2185365 AATAATTAAAAATATT
1 AATAA-TAAAAAT-TT
2185381 AATAATAAAAATTT
1 AATAATAAAAATTT
2185395 AAT--TAAAAATTT
1 AATAATAAAAATTT
2185407 A
1 A
2185408 TATGTCAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
12 10 0.37
14 5 0.19
15 7 0.26
16 5 0.19
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
AATAATAAAAATTT
Found at i:2185403 original size:12 final size:12
Alignment explanation
Indices: 2185356--2185407 Score: 63
Period size: 10 Copynumber: 4.2 Consensus size: 12
2185346 ATTGATTTAA
2185356 TTAATTAAAAA-
1 TTAATTAAAAAT
2185367 -TAATTAAAAAT
1 TTAATTAAAAAT
2185378 ATTAATAATAAAAAT
1 -TTAAT--TAAAAAT
2185393 TTAATTAAAAAT
1 TTAATTAAAAAT
2185405 TTA
1 TTA
2185408 TATGTCAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
10 10 0.28
12 10 0.28
13 4 0.11
14 5 0.14
15 7 0.19
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
TTAATTAAAAAT
Found at i:2188102 original size:4 final size:4
Alignment explanation
Indices: 2188095--2188194 Score: 71
Period size: 4 Copynumber: 24.8 Consensus size: 4
2188085 TTTTCTTTTT
* * *
2188095 TTTC TTTC TTTTGC TCTC GTTC TTTC -TTC -TTC TTTC TTTTT TTTC TTTC
1 TTTC TTTC -TTT-C TTTC TTTC TTTC TTTC TTTC TTTC -TTTC TTTC TTTC
* * * * *
2188144 TTT- GTCC TTAC TTCC TCCTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
1 TTTC TTTC TTTC TTTC T-TTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
2188192 TTT
1 TTT
2188195 TCTAGTTCAA
Statistics
Matches: 76, Mismatches: 14, Indels: 12
0.75 0.14 0.12
Matches are distributed among these distances:
3 7 0.09
4 58 0.76
5 10 0.13
6 1 0.01
ACGTcount: A:0.01, C:0.27, G:0.03, T:0.69
Consensus pattern (4 bp):
TTTC
Found at i:2188102 original size:13 final size:13
Alignment explanation
Indices: 2188086--2188146 Score: 68
Period size: 13 Copynumber: 4.5 Consensus size: 13
2188076 AGCCATCCTT
2188086 TTTCTTTTTTTTC
1 TTTCTTTTTTTTC
* *
2188099 TTTCTTTTGCTCTC
1 TTTCTTTT-TTTTC
* *
2188113 GTTCTTTCTTCTTC
1 TTTCTTT-TTTTTC
2188127 TTTCTTTTTTTTC
1 TTTCTTTTTTTTC
2188140 TTTCTTT
1 TTTCTTT
2188147 GTCCTTACTT
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
13 20 0.53
14 17 0.45
15 1 0.03
ACGTcount: A:0.00, C:0.21, G:0.03, T:0.75
Consensus pattern (13 bp):
TTTCTTTTTTTTC
Found at i:2188106 original size:10 final size:10
Alignment explanation
Indices: 2188083--2188146 Score: 62
Period size: 10 Copynumber: 6.4 Consensus size: 10
2188073 TTAAGCCATC
2188083 CTTTTTCTTT
1 CTTTTTCTTT
2188093 -TTTTTCTTT
1 CTTTTTCTTT
* *
2188102 CTTTTGCTCT
1 CTTTTTCTTT
2188112 CGTTCTTTC-TT
1 C-TT-TTTCTTT
2188123 CTTCTTTCTTT
1 CTT-TTTCTTT
2188134 -TTTTTCTTT
1 CTTTTTCTTT
2188143 CTTT
1 CTTT
2188147 GTCCTTACTT
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
9 16 0.36
10 20 0.44
11 6 0.13
12 3 0.07
ACGTcount: A:0.00, C:0.22, G:0.03, T:0.75
Consensus pattern (10 bp):
CTTTTTCTTT
Found at i:2188166 original size:37 final size:40
Alignment explanation
Indices: 2188081--2188182 Score: 115
Period size: 41 Copynumber: 2.6 Consensus size: 40
2188071 TTTTAAGCCA
* *
2188081 TCCTTTTTCTTTTTTTTCTTTCTTTTGCTCTCGTTCTTTCT
1 TCCTCTTTCTTTTTTTTCTTTC-TTTGCTCTCGTTCTTTCC
*
2188122 TCTTCTTTCTTTTTTTTCTTTCTTTG-TC-C-TTAC-TTCC
1 TCCTCTTTCTTTTTTTTCTTTCTTTGCTCTCGTT-CTTTCC
*
2188159 TCCTCTTTC-TTTCTTTCTTTCTTT
1 TCCTCTTTCTTTTTTTTCTTTCTTT
2188183 CTTTCTTTCT
Statistics
Matches: 55, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
36 14 0.25
37 13 0.24
38 2 0.04
39 2 0.04
40 4 0.07
41 20 0.36
ACGTcount: A:0.01, C:0.26, G:0.03, T:0.70
Consensus pattern (40 bp):
TCCTCTTTCTTTTTTTTCTTTCTTTGCTCTCGTTCTTTCC
Found at i:2189429 original size:20 final size:19
Alignment explanation
Indices: 2189379--2189430 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 19
2189369 CCCTTAAAAA
*
2189379 TATCGATACACAGTTCAAAG
1 TATCGATACA-TGTTCAAAG
*
2189399 TATCGATACATGTTGCAATG
1 TATCGATACATGTT-CAAAG
2189419 TATCGATACATG
1 TATCGATACATG
2189431 AAAAAGATGT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 3 0.10
20 26 0.90
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (19 bp):
TATCGATACATGTTCAAAG
Found at i:2189518 original size:13 final size:13
Alignment explanation
Indices: 2189500--2189525 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2189490 TACACAAAAT
2189500 ATGTATCGATACA
1 ATGTATCGATACA
2189513 ATGTATCGATACA
1 ATGTATCGATACA
2189526 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2193623 original size:15 final size:15
Alignment explanation
Indices: 2193603--2193633 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2193593 TAAAAATGTC
*
2193603 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
2193618 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
2193633 C
1 C
2193634 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:2195737 original size:13 final size:13
Alignment explanation
Indices: 2195715--2195752 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
2195705 CATTTTTCTT
*
2195715 TGTATTGATACAA
1 TGTATCGATACAA
*
2195728 TGTATCGATACAC
1 TGTATCGATACAA
2195741 TGTATCGATACA
1 TGTATCGATACA
2195753 GGGGGATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2195907 original size:20 final size:20
Alignment explanation
Indices: 2195864--2195909 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
2195854 AAATCTTTTG
2195864 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
2195885 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
2195905 CAAAA
1 CAAAA
2195910 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:2197371 original size:33 final size:33
Alignment explanation
Indices: 2197334--2197400 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
2197324 TTCAACGATT
*
2197334 TGTATTGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
2197367 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
2197400 T
1 T
2197401 TTAAGCTACT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.34, C:0.10, G:0.13, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:2197372 original size:13 final size:13
Alignment explanation
Indices: 2197354--2197378 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2197344 CATAAAATGT
2197354 TGTATCGATACAA
1 TGTATCGATACAA
2197367 TGTATCGATACA
1 TGTATCGATACA
2197379 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2197605 original size:52 final size:52
Alignment explanation
Indices: 2197477--2197597 Score: 206
Period size: 52 Copynumber: 2.3 Consensus size: 52
2197467 CACGGATCTT
* *
2197477 TGTATTGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
2197529 TGTATCGATACACGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
2197581 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
2197598 ATAAATTTTC
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 64 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:2200996 original size:23 final size:21
Alignment explanation
Indices: 2200954--2200997 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 21
2200944 GTTTAATGTT
**
2200954 TTTGCTTGACTTTGTGTTTTA
1 TTTGCTTGACTTTGAATTTTA
2200975 TTTGCATTGTACTTTGAATTTTA
1 TTTGC-TTG-ACTTTGAATTTTA
2200998 ATCTATAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 5 0.26
22 3 0.16
23 11 0.58
ACGTcount: A:0.16, C:0.09, G:0.16, T:0.59
Consensus pattern (21 bp):
TTTGCTTGACTTTGAATTTTA
Found at i:2201833 original size:20 final size:19
Alignment explanation
Indices: 2201779--2201834 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
2201769 AAAACCCTTA
*
2201779 AAAGTATCGATACACAGTTC
1 AAAGTATCGATACA-TGTTC
2201799 AAAGTATCGATACATGTTGC
1 AAAGTATCGATACATGTT-C
*
2201819 AATGTATCGATACATG
1 AAAGTATCGATACATG
2201835 AAAAAGATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 3 0.09
20 30 0.91
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.29
Consensus pattern (19 bp):
AAAGTATCGATACATGTTC
Found at i:2203749 original size:34 final size:35
Alignment explanation
Indices: 2203711--2203777 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
2203701 CCTTACAACA
2203711 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
2203745 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
2203778 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:2204206 original size:10 final size:10
Alignment explanation
Indices: 2204191--2204215 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
2204181 TTTGAAAATA
2204191 TAGCCGTTAC
1 TAGCCGTTAC
2204201 TAGCCGTTAC
1 TAGCCGTTAC
2204211 TAGCC
1 TAGCC
2204216 AATGTATCGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.20, C:0.32, G:0.20, T:0.28
Consensus pattern (10 bp):
TAGCCGTTAC
Found at i:2204256 original size:13 final size:13
Alignment explanation
Indices: 2204238--2204263 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2204228 CATTTTATGG
2204238 TGTATCGATACAA
1 TGTATCGATACAA
2204251 TGTATCGATACAA
1 TGTATCGATACAA
2204264 GTTTGGCTAC
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2206678 original size:23 final size:24
Alignment explanation
Indices: 2206633--2206679 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
2206623 TAGAGAATTG
*
2206633 AACACAAATTCAATTAAGCACAAA
1 AACACAAATTCAATTAAGAACAAA
2206657 AACAC-AATTCAATTGAA-AACAAA
1 AACACAAATTCAATT-AAGAACAAA
2206680 TTTTCAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 14 0.67
24 7 0.33
ACGTcount: A:0.60, C:0.19, G:0.04, T:0.17
Consensus pattern (24 bp):
AACACAAATTCAATTAAGAACAAA
Found at i:2208061 original size:21 final size:21
Alignment explanation
Indices: 2208037--2208078 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
2208027 AGCTATTTCT
* *
2208037 TCATTTTCATCAACCTCTTGA
1 TCATCTTCATCAACATCTTGA
*
2208058 TCATCTTCATCATCATCTTGA
1 TCATCTTCATCAACATCTTGA
2208079 ACGGTTGATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.29, G:0.05, T:0.43
Consensus pattern (21 bp):
TCATCTTCATCAACATCTTGA
Found at i:2209209 original size:34 final size:35
Alignment explanation
Indices: 2209171--2209237 Score: 93
Period size: 37 Copynumber: 1.9 Consensus size: 35
2209161 CCTTACAACA
2209171 CTATC-TTTT-AAGGCTAAGATAAAAACCTCTCTCT
1 CTATCTTTTTAAAGGCTAAGAT-AAAACCTCTCTCT
*
2209205 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATCTTTTT-AAAGGCTAAGATAAAACCTCTC
2209238 AATCACTTAG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
34 5 0.17
35 4 0.14
36 9 0.31
37 11 0.38
ACGTcount: A:0.31, C:0.24, G:0.10, T:0.34
Consensus pattern (35 bp):
CTATCTTTTTAAAGGCTAAGATAAAACCTCTCTCT
Found at i:2209716 original size:13 final size:13
Alignment explanation
Indices: 2209698--2209722 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2209688 CATTTTATGG
2209698 TGTATCGATACAA
1 TGTATCGATACAA
2209711 TGTATCGATACA
1 TGTATCGATACA
2209723 TACTTTGTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2209738 original size:32 final size:33
Alignment explanation
Indices: 2209675--2209742 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
2209665 CGTTACAAGC
*
2209675 CAATGTATCGATACATTTTATGGTGTATCGATA
1 CAATGTATCGATACATCTTATGGTGTATCGATA
2209708 CAATGTATCGATACATACTT-T-GTGTATCGATA
1 CAATGTATCGATACAT-CTTATGGTGTATCGATA
2209740 CAA
1 CAA
2209743 GTTTGGCTAC
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
32 14 0.42
33 17 0.52
34 2 0.06
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.37
Consensus pattern (33 bp):
CAATGTATCGATACATCTTATGGTGTATCGATA
Found at i:2210954 original size:11 final size:11
Alignment explanation
Indices: 2210938--2210963 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
2210928 TGTTAATTAC
2210938 TAATTATCTAA
1 TAATTATCTAA
2210949 TAATTATCTAA
1 TAATTATCTAA
2210960 TAAT
1 TAAT
2210964 CTATTTATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (11 bp):
TAATTATCTAA
Found at i:2210965 original size:19 final size:18
Alignment explanation
Indices: 2210931--2210966 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
2210921 ATATTATTGT
*
2210931 TAATTACTAATTATCTAA
1 TAATTACTAATAATCTAA
2210949 TAATTATCTAATAATCTA
1 TAATTA-CTAATAATCTA
2210967 TTTATATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (18 bp):
TAATTACTAATAATCTAA
Found at i:2214764 original size:14 final size:13
Alignment explanation
Indices: 2214741--2214770 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
2214731 ATCGCCGAAA
2214741 TTCCTGTGATCTG
1 TTCCTGTGATCTG
2214754 TTCCATGTGATCTG
1 TTCC-TGTGATCTG
2214768 TTC
1 TTC
2214771 TGTTGATAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.10, C:0.23, G:0.20, T:0.47
Consensus pattern (13 bp):
TTCCTGTGATCTG
Found at i:2215543 original size:14 final size:14
Alignment explanation
Indices: 2215526--2215573 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
2215516 ATTTTTTTAA
2215526 TTTTTAAAATATA-
1 TTTTTAAAATATAT
*
2215539 TTTTTAGAAAAATAT
1 TTTTTA-AAATATAT
*
2215554 TTTTTAAAATAGAT
1 TTTTTAAAATATAT
2215568 TTTTTA
1 TTTTTA
2215574 TAAACTTGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
13 6 0.20
14 18 0.60
15 6 0.20
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (14 bp):
TTTTTAAAATATAT
Found at i:2216981 original size:92 final size:92
Alignment explanation
Indices: 2216818--2217015 Score: 220
Period size: 92 Copynumber: 2.2 Consensus size: 92
2216808 CTTTCAACAG
* * * * * *
2216818 TGACATTTACAATTAATTAACTTTTCTATTTTTCTACCAAAAGGAATCTAATTCTTATATATAAT
1 TGACATTTACAATCAATCAACTTTTCTATTTTTCTACCAAAAGAAATCTAATTCTCAGATACAAT
*
2216883 CTATGCATTAGTCTAATACTTACAATC
66 CTATGCATTAGCCTAATACTTACAATC
* * * * *
2216910 TGACATTTATAATCAATCAAGTTTTCT-TTCTTTCTACCAAAAGAAATTTGATTCTCAGATGCAA
1 TGACATTTACAATCAATCAACTTTTCTATT-TTTCTACCAAAAGAAATCTAATTCTCAGATACAA
* * * *
2216974 T-TCATGCATTAGCCTAATCCTTGCAGTT
65 TCT-ATGCATTAGCCTAATACTTACAATC
2217002 TGACATTTACAATC
1 TGACATTTACAATC
2217016 TATGCATTAG
Statistics
Matches: 87, Mismatches: 17, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
91 3 0.03
92 84 0.97
ACGTcount: A:0.33, C:0.18, G:0.08, T:0.40
Consensus pattern (92 bp):
TGACATTTACAATCAATCAACTTTTCTATTTTTCTACCAAAAGAAATCTAATTCTCAGATACAAT
CTATGCATTAGCCTAATACTTACAATC
Found at i:2227176 original size:17 final size:16
Alignment explanation
Indices: 2227143--2227174 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
2227133 GTGAAAATAA
2227143 ATTTTTACATAAGGGG
1 ATTTTTACATAAGGGG
2227159 ATTTTTACATAAGGGG
1 ATTTTTACATAAGGGG
2227175 GAGAAGATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (16 bp):
ATTTTTACATAAGGGG
Found at i:2227196 original size:22 final size:22
Alignment explanation
Indices: 2227168--2227219 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 22
2227158 GATTTTTACA
2227168 TAAGGGGGAGAAGATAA-CTGTT
1 TAAGGGGGAGAAGATAATC-GTT
2227190 TAA-GGGG-G-AGATAATCGTT
1 TAAGGGGGAGAAGATAATCGTT
2227209 TAAGGGGGAGA
1 TAAGGGGGAGA
2227220 TTTTTTTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
19 12 0.46
20 6 0.23
21 5 0.19
22 3 0.12
ACGTcount: A:0.35, C:0.04, G:0.40, T:0.21
Consensus pattern (22 bp):
TAAGGGGGAGAAGATAATCGTT
Found at i:2227311 original size:28 final size:28
Alignment explanation
Indices: 2227279--2227338 Score: 120
Period size: 28 Copynumber: 2.1 Consensus size: 28
2227269 TTTCTTGAAG
2227279 ATGTGTATCAGATTACAGGTTTTGAACT
1 ATGTGTATCAGATTACAGGTTTTGAACT
2227307 ATGTGTATCAGATTACAGGTTTTGAACT
1 ATGTGTATCAGATTACAGGTTTTGAACT
2227335 ATGT
1 ATGT
2227339 TGACATAAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.28, C:0.10, G:0.22, T:0.40
Consensus pattern (28 bp):
ATGTGTATCAGATTACAGGTTTTGAACT
Found at i:2227816 original size:13 final size:13
Alignment explanation
Indices: 2227798--2227824 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2227788 CCATGCTGCC
2227798 TTGTATCGATACA
1 TTGTATCGATACA
2227811 TTGTATCGATACA
1 TTGTATCGATACA
2227824 T
1 T
2227825 GTTCAATGTA
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:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2227836 original size:19 final size:21
Alignment explanation
Indices: 2227810--2227865 Score: 80
Period size: 19 Copynumber: 2.8 Consensus size: 21
2227800 GTATCGATAC
**
2227810 ATTGTATCGATACATGTTC-A
1 ATTGTATCGATACATGGACAA
2227830 A-TGTATCGATACATGGACAA
1 ATTGTATCGATACATGGACAA
2227850 ATTGTATCGATACATG
1 ATTGTATCGATACATG
2227866 AAATTGGCAG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
19 15 0.47
20 3 0.09
21 14 0.44
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (21 bp):
ATTGTATCGATACATGGACAA
Found at i:2227920 original size:20 final size:20
Alignment explanation
Indices: 2227895--2227932 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
2227885 TATCACTATT
2227895 TGTATCGATACATGGTATAA
1 TGTATCGATACATGGTATAA
*
2227915 TGTATCGATACATTGTAT
1 TGTATCGATACATGGTAT
2227933 CGATACATGA
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:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATGGTATAA
Found at i:2227931 original size:13 final size:13
Alignment explanation
Indices: 2227915--2227940 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2227905 CATGGTATAA
2227915 TGTATCGATACAT
1 TGTATCGATACAT
2227928 TGTATCGATACAT
1 TGTATCGATACAT
2227941 GAAGAAATGT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2227936 original size:33 final size:32
Alignment explanation
Indices: 2227894--2227960 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 32
2227884 CTATCACTAT
2227894 TTGTATCGATACATG-GTATAATGTATCGATACA
1 TTGTATCGATACATGAG-A-AATGTATCGATACA
2227927 TTGTATCGATACATGAAGAAATGTATCGATACA
1 TTGTATCGATACATG-AGAAATGTATCGATACA
2227960 T
1 T
2227961 ACGGCTATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
33 30 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (32 bp):
TTGTATCGATACATGAGAAATGTATCGATACA
Found at i:2231141 original size:30 final size:30
Alignment explanation
Indices: 2231099--2231157 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
2231089 ATATCAAAAG
*
2231099 TTTTCATAATTTGCAATTTGGTCCTTATGC
1 TTTTCATAATTTGCAATTTAGTCCTTATGC
*
2231129 TTTTCA-ATATTTGCATTTTAGTCCTTATG
1 TTTTCATA-ATTTGCAATTTAGTCCTTATG
2231158 ATGTTAAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 25 0.96
ACGTcount: A:0.20, C:0.15, G:0.12, T:0.53
Consensus pattern (30 bp):
TTTTCATAATTTGCAATTTAGTCCTTATGC
Found at i:2231606 original size:23 final size:23
Alignment explanation
Indices: 2231580--2231645 Score: 87
Period size: 23 Copynumber: 2.9 Consensus size: 23
2231570 TCTTTTGCTA
* *
2231580 TTTTGCTACTACTTTGGTTGTTG
1 TTTTGCTACTATTTTGGTTGTTC
* *
2231603 TTTTGTTGCTATTTTGGTTGTTC
1 TTTTGCTACTATTTTGGTTGTTC
*
2231626 TTTTGCTACTGTTTTGGTTG
1 TTTTGCTACTATTTTGGTTG
2231646 CTTCAATTGT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.06, C:0.11, G:0.23, T:0.61
Consensus pattern (23 bp):
TTTTGCTACTATTTTGGTTGTTC
Found at i:2232136 original size:12 final size:12
Alignment explanation
Indices: 2232119--2232162 Score: 61
Period size: 12 Copynumber: 3.5 Consensus size: 12
2232109 GCTGTTTTGC
2232119 CATTGCTTTCTT
1 CATTGCTTTCTT
*
2232131 CATTGCATTCGCTT
1 CATTGC-TT-TCTT
2232145 CATTGCTTTCTT
1 CATTGCTTTCTT
2232157 CATTGC
1 CATTGC
2232163 ATCTCAGTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 15 0.54
13 4 0.14
14 9 0.32
ACGTcount: A:0.11, C:0.27, G:0.11, T:0.50
Consensus pattern (12 bp):
CATTGCTTTCTT
Found at i:2232621 original size:10 final size:10
Alignment explanation
Indices: 2232606--2232639 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
2232596 GATTTAATCA
2232606 TTTTATATTT
1 TTTTATATTT
2232616 TTTTAT-TTT
1 TTTTATATTT
*
2232625 TATTATATTT
1 TTTTATATTT
2232635 TTTTA
1 TTTTA
2232640 ATGTCAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
9 8 0.38
10 13 0.62
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTTATATTT
Found at i:2234019 original size:20 final size:20
Alignment explanation
Indices: 2233996--2234049 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
2233986 AAGTACCCAG
* * *
2233996 ATGTATCGATATATTTTTCA
1 ATGTATCGATACATGTATCA
*
2234016 ATGTATCGATACATGTATGA
1 ATGTATCGATACATGTATCA
2234036 ATGTATCGATACAT
1 ATGTATCGATACAT
2234050 TCTGTCTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATGTATCA
Found at i:2237985 original size:12 final size:12
Alignment explanation
Indices: 2237968--2238029 Score: 52
Period size: 14 Copynumber: 4.6 Consensus size: 12
2237958 TTTATACCCC
*
2237968 AAAAAAACCAAA
1 AAAAAAAACAAA
2237980 AAAAAAAACAAAAA
1 AAAAAAAAC--AAA
2237994 AATAGAAAAACCAAGA
1 AA-A-AAAAA-CAA-A
2238010 AAAAAATAACAAA
1 AAAAAA-AACAAA
2238023 AAAAAAA
1 AAAAAAA
2238030 CAGAAAGGGG
Statistics
Matches: 42, Mismatches: 1, Indels: 14
0.74 0.02 0.25
Matches are distributed among these distances:
12 9 0.21
13 7 0.17
14 11 0.26
15 6 0.14
16 8 0.19
17 1 0.02
ACGTcount: A:0.84, C:0.10, G:0.03, T:0.03
Consensus pattern (12 bp):
AAAAAAAACAAA
Found at i:2239162 original size:28 final size:28
Alignment explanation
Indices: 2239119--2239403 Score: 354
Period size: 28 Copynumber: 9.9 Consensus size: 28
2239109 TGTTCATCTC
*
2239119 TTCAAAGCCCATAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * * *
2239147 TTCAAAGCCCACAAGTTAATAGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
2239175 TTCAAAGCCCACAAGTCAGTGGCAACCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
2239203 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
2239231 TTCAAAGCCCACAAGTCAGTGGTATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
2239259 TTCAAAGCCCACAAATCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
2239287 TTCAAAGCACACAAGTCAGTGGTACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
2239315 TTCAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
* *
2239344 TTCAAAGCCCACACGAGTCGGTGGCAACTCTT
1 TTCAAAGCCCACA--AGTCAGTGGC-AC-CCT
*
2239376 TTCAAAGCCCACATAAGTTAGTGGCACC
1 TTCAAAGCCCAC--AAGTCAGTGGCACC
2239404 TTTTTTTAAA
Statistics
Matches: 228, Mismatches: 23, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
28 174 0.76
29 15 0.07
30 1 0.00
31 11 0.05
32 26 0.11
34 1 0.00
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.22
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCACCCT
Found at i:2239260 original size:84 final size:84
Alignment explanation
Indices: 2239119--2239403 Score: 390
Period size: 84 Copynumber: 3.3 Consensus size: 84
2239109 TGTTCATCTC
* * * *
2239119 TTCAAAGCCCATAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAATAGCATCCTTTCAAAGCC
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCC
2239184 CACAAGTCAGTGGCAACCT
66 CACAAGTCAGTGGCAACCT
* *
2239203 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGTATCCTTTCAAAGCC
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCC
* *
2239268 CACAAATCAGTGGCATCCT
66 CACAAGTCAGTGGCAACCT
* * *
2239287 TTCAAAGCACACAAGTCAGTGGTACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGC
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA-TCCTTTCAAAGC
*
2239352 CCACACGAGTCGGTGGCAACTCTT
65 CCACA--AGTCAGTGGCAAC-C-T
*
2239376 TTCAAAGCCCACATAAGTTAGTGGCACC
1 TTCAAAGCCCAC--AAGTCAGTGGCACC
2239404 TTTTTTTAAA
Statistics
Matches: 175, Mismatches: 19, Indels: 7
0.87 0.09 0.03
Matches are distributed among these distances:
84 124 0.71
85 16 0.09
87 10 0.06
88 1 0.01
89 12 0.07
91 12 0.07
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.22
Consensus pattern (84 bp):
TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCC
CACAAGTCAGTGGCAACCT
Found at i:2240266 original size:20 final size:20
Alignment explanation
Indices: 2240243--2240327 Score: 71
Period size: 20 Copynumber: 3.7 Consensus size: 20
2240233 AAGTACCTAG
2240243 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
2240263 ATGTATCGATACAATATGTCTTTTTACTCA
1 ATGTATCGATAC---A-----TTTT--TCA
2240293 GATGTATCGATACATTTTTCA
1 -ATGTATCGATACATTTTTCA
2240314 ATGTATCGATACAT
1 ATGTATCGATACAT
2240328 CTAGTTAAAA
Statistics
Matches: 54, Mismatches: 0, Indels: 22
0.71 0.00 0.29
Matches are distributed among these distances:
20 26 0.48
21 3 0.06
23 5 0.09
28 5 0.09
30 3 0.06
31 12 0.22
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:2251119 original size:20 final size:20
Alignment explanation
Indices: 2251094--2251133 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
2251084 CATATTCATA
2251094 CCATGCATATATATCTATAT
1 CCATGCATATATATCTATAT
2251114 CCATGCATATATATCTATAT
1 CCATGCATATATATCTATAT
2251134 GCATACATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.20, G:0.05, T:0.40
Consensus pattern (20 bp):
CCATGCATATATATCTATAT
Found at i:2251135 original size:16 final size:18
Alignment explanation
Indices: 2251085--2251138 Score: 60
Period size: 20 Copynumber: 3.1 Consensus size: 18
2251075 AATCATTCGC
*
2251085 ATAT-TCATACCATGCAT
1 ATATATCATATCATGCAT
2251102 ATATATCTATATCCATGCAT
1 ATATATC-ATAT-CATGCAT
2251122 ATATATC-TAT-ATGCAT
1 ATATATCATATCATGCAT
2251138 A
1 A
2251139 CATACATGCA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
16 7 0.21
17 4 0.12
18 5 0.15
19 3 0.09
20 14 0.42
ACGTcount: A:0.37, C:0.19, G:0.06, T:0.39
Consensus pattern (18 bp):
ATATATCATATCATGCAT
Found at i:2251142 original size:20 final size:20
Alignment explanation
Indices: 2251094--2251142 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
2251084 CATATTCATA
*
2251094 CCATGCATATATATCTATAT
1 CCATACATATATATCTATAT
*
2251114 CCATGCATATATATCTATAT
1 CCATACATATATATCTATAT
*
2251134 GCATACATA
1 CCATACATA
2251143 CATGCATACA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.37, C:0.20, G:0.06, T:0.37
Consensus pattern (20 bp):
CCATACATATATATCTATAT
Found at i:2255973 original size:13 final size:13
Alignment explanation
Indices: 2255957--2255986 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
2255947 ATACATTGTT
2255957 CATTGTATCGATA
1 CATTGTATCGATA
2255970 CATTGTATCGATA
1 CATTGTATCGATA
2255983 CATT
1 CATT
2255987 CTGGGTTTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:2256027 original size:20 final size:19
Alignment explanation
Indices: 2256002--2256075 Score: 103
Period size: 20 Copynumber: 3.7 Consensus size: 19
2255992 TTTACCCAGA
2256002 TGTATCGATACATTTTGCAT
1 TGTATCGATACATTTT-CAT
*
2256022 TGTATCGATACATTGCTCAT
1 TGTATCGATACATT-TTCAT
*
2256042 TGTATCGATACATTTTACAA
1 TGTATCGATACATTTT-CAT
2256062 TGTATCGATACATT
1 TGTATCGATACATT
2256076 CAGGCATTTT
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
19 1 0.02
20 47 0.96
21 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.42
Consensus pattern (19 bp):
TGTATCGATACATTTTCAT
Found at i:2258522 original size:51 final size:51
Alignment explanation
Indices: 2258447--2258565 Score: 159
Period size: 51 Copynumber: 2.3 Consensus size: 51
2258437 GTTATTTCCG
* * * *
2258447 AGGGGATACTCCAACCCTGGTTTTATTTCAAAAATATCAATTTTCCATAAT
1 AGGGGATACTCCAACCCTGATTTTATTTCAAAAACACCAATTTTCCACAAT
* * *
2258498 CGGGGATACTCCAACTCC-GATTTTATTTCCAAAACACCAATTTTTCACAAT
1 AGGGGATACTCCAAC-CCTGATTTTATTTCAAAAACACCAATTTTCCACAAT
2258549 AGGGGATACTCCAACCC
1 AGGGGATACTCCAACCC
2258566 CGTTATTTCC
Statistics
Matches: 59, Mismatches: 8, Indels: 3
0.84 0.11 0.04
Matches are distributed among these distances:
50 2 0.03
51 55 0.93
52 2 0.03
ACGTcount: A:0.32, C:0.25, G:0.13, T:0.30
Consensus pattern (51 bp):
AGGGGATACTCCAACCCTGATTTTATTTCAAAAACACCAATTTTCCACAAT
Found at i:2258574 original size:130 final size:128
Alignment explanation
Indices: 2258370--2258646 Score: 337
Period size: 130 Copynumber: 2.2 Consensus size: 128
2258360 ATTTTTCATC
* * * * *
2258370 TCGGGGATACTTCAA-TCCCGGTTTCATTTCCAAAACATCAAATTTTCATCGGGGATACTCTAAC
1 TCGGGGATACTCCAACTCCCGATTTCATTTCCAAAACACCAAATTTTCATAGGGGATACTCCAAC
* * ** *
2258434 CCCGTTATTTCCGAGGGGATACTCCAACCCTGGTTTTATTTCAAAAAT-ATCAATTTTCCATAA
66 CCCGTTATTTCCAAGGGGATACTCCAACCCCGGCCTTATTT-AAAAATCATCAATTTTCCACAA
* *
2258497 TCGGGGATACTCCAACT-CCGATTTTATTTCCAAAACACCAATTTTTCACAATAGGGGATACTCC
1 TCGGGGATACTCCAACTCCCGATTTCATTTCCAAAACACCAAATTTT--C-ATAGGGGATACTCC
* ** * *
2258561 AACCCCGTTATTTCCAAGGGGATACTTCAACCCCGGCCTTATTTTTAAATCATCGATTTTTCACA
63 AACCCCGTTATTTCCAAGGGGATACTCCAACCCCGGCCTTATTTAAAAATCATCAATTTTCCACA
2258626 A
128 A
2258627 TCGGGGATACTCCAAC-CCCG
1 TCGGGGATACTCCAACTCCCG
2258647 TTATTTTCGA
Statistics
Matches: 127, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
127 39 0.31
128 1 0.01
129 5 0.04
130 82 0.65
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (128 bp):
TCGGGGATACTCCAACTCCCGATTTCATTTCCAAAACACCAAATTTTCATAGGGGATACTCCAAC
CCCGTTATTTCCAAGGGGATACTCCAACCCCGGCCTTATTTAAAAATCATCAATTTTCCACAA
Found at i:2258582 original size:79 final size:79
Alignment explanation
Indices: 2258499--2258805 Score: 357
Period size: 79 Copynumber: 3.9 Consensus size: 79
2258489 TTCCATAATC
* **
2258499 GGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTTCACAATAGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGATTTTATTTTTAAAACACCAATTTTTCACAATAGGGGATACTCCAAC
*
2258564 CCCGTTATTTCCAA
66 CCCGTTATTTCCGA
* *** * * * *
2258578 GGGGATACTTCAACCCCGGCCTTATTTTTAAATCATCGATTTTTCACAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGATTTTATTTTTAAAACACCAATTTTTCACAATAGGGGATACTCCAAC
*
2258643 CCCGTTATTTTCGA
66 CCCGTTATTTCCGA
* * * *
2258657 GGGGATACTCCAACCCCGATTTCATTTTTAAAATACCGATTTTT-ATAATCA-GGGATACTCCAA
1 GGGGATACTCCAACCCCGATTTTATTTTTAAAACACCAATTTTTCACAAT-AGGGGATACTCCAA
* *
2258720 CCCTGTTATTTCTGA
65 CCCCGTTATTTCCGA
** * * * * *
2258735 GGGGATACTCCAACCCCGATTTTATTTTTGGAACACCAATTTTCCATAATCGGGGATACTCTAGC
1 GGGGATACTCCAACCCCGATTTTATTTTTAAAACACCAATTTTTCACAATAGGGGATACTCCAAC
2258800 CCCGTT
66 CCCGTT
2258806 GTTATCTCCA
Statistics
Matches: 189, Mismatches: 36, Indels: 6
0.82 0.16 0.03
Matches are distributed among these distances:
78 66 0.35
79 123 0.65
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.32
Consensus pattern (79 bp):
GGGGATACTCCAACCCCGATTTTATTTTTAAAACACCAATTTTTCACAATAGGGGATACTCCAAC
CCCGTTATTTCCGA
Found at i:2258749 original size:157 final size:158
Alignment explanation
Indices: 2258499--2258805 Score: 386
Period size: 157 Copynumber: 1.9 Consensus size: 158
2258489 TTCCATAATC
* *
2258499 GGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTTCACAATAGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGATTTCATTTCCAAAACACCAATTTTTCACAATAGGGGATACTCCAAC
* * * * *
2258564 CCCGTTATTTCCAAGGGGATACTTCAACCCCGGCCTTATTTTT-AAATCATCGATTTTTCACAAT
66 CCCGTTATTTCCAAGGGGATACTCCAACCCCGACCTTATTTTTGAAA-CACCAATTTTCCACAAT
2258628 CGGGGATACTCCAACCCCGTTATTTTCGA
130 CGGGGATACTCCAACCCCGTTATTTTCGA
** * * *
2258657 GGGGATACTCCAACCCCGATTTCATTTTTAAAATACCGATTTTT-ATAATCA-GGGATACTCCAA
1 GGGGATACTCCAACCCCGATTTCATTTCCAAAACACCAATTTTTCACAAT-AGGGGATACTCCAA
* ** ** * *
2258720 CCCTGTTATTTCTGAGGGGATACTCCAACCCCGATTTTATTTTTGGAACACCAATTTTCCATAAT
65 CCCCGTTATTTCCAAGGGGATACTCCAACCCCGACCTTATTTTTGAAACACCAATTTTCCACAAT
* *
2258785 CGGGGATACTCTAGCCCCGTT
130 CGGGGATACTCCAACCCCGTT
2258806 GTTATCTCCA
Statistics
Matches: 126, Mismatches: 21, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
157 85 0.67
158 41 0.33
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.32
Consensus pattern (158 bp):
GGGGATACTCCAACCCCGATTTCATTTCCAAAACACCAATTTTTCACAATAGGGGATACTCCAAC
CCCGTTATTTCCAAGGGGATACTCCAACCCCGACCTTATTTTTGAAACACCAATTTTCCACAATC
GGGGATACTCCAACCCCGTTATTTTCGA
Found at i:2267390 original size:55 final size:55
Alignment explanation
Indices: 2267303--2268089 Score: 1033
Period size: 55 Copynumber: 13.9 Consensus size: 55
2267293 TTTTCTTTTT
2267303 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTC
1 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTC
* * *
2267358 AAAGCCCACACAAGTTGGTGGCA-CTTCCCAGTCCTCAAAGAGTAGGATGCCTTTTC
1 AAAGCCCACACAAGTTGGTGGCACCTT-TCAGTCCTCAAAGAGCAGGACGCC-TTTC
* * *
2267414 TTTTTAAAGGCCACACAAGTTGGTGGCACCTTTCAGTCCTTAAAGAGGAGGACGCCTTTC
1 -----AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTC
*
2267474 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATGCCTTTC
1 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTC
* *
2267529 AAAGCCCACACAAGTTGGTGGCA-CTTCCCAGTCCTCAAAGAGCAGGACACCTTTTC
1 AAAGCCCACACAAGTTGGTGGCACCTT-TCAGTCCTCAAAGAGCAGGACGCC-TTTC
2267585 TTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTC
1 -----AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTC
* *
2267645 AAAGCCCACACAAGTTGGTGGCA-CTTCCCAGTCCTCAAAGAGCAGGACACCTTTTC
1 AAAGCCCACACAAGTTGGTGGCACCTT-TCAGTCCTCAAAGAGCAGGACGCC-TTTC
* * * *
2267701 TTTTTAAAGCCCACACAAGTTGGTGACACCTTTCAGTCTTCAAAGAGCATGATGCCTTTC
1 -----AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTC
*
2267761 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCGTTC
1 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTC
*
2267816 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTTCTCAAAGAGCAGGACGCCTTTC
1 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTC
** *
2267871 AAAGCCCACACAAGTTGGTGGCATTTTTTTTAGTCCTCAAAGAGCAGGACGCCTTTC
1 AAAGCCCACACAAGTTGGTGGCA--CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTC
** *
2267928 AAAGCCCACACAAGTTGGTGGCATTTTTTTTAGTCCTCAAAGAGCAGGACGCCTTTC
1 AAAGCCCACACAAGTTGGTGGCA--CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTC
** * * * *
2267985 AAAGCCCACACAAGTTGGTGGCATTTTTTTAGTCCTCAAAGAGTAGGATGCCTTTG
1 AAAGCCCACACAAGTTGGTGGCA-CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTC
*
2268041 AAAGCCCACACAAGTTGGTGGCA-CTTCCCAGTCCTCAAAGAGCAGGACG
1 AAAGCCCACACAAGTTGGTGGCACCTT-TCAGTCCTCAAAGAGCAGGACG
2268090 TTCTCTCCTT
Statistics
Matches: 661, Mismatches: 44, Indels: 54
0.87 0.06 0.07
Matches are distributed among these distances:
54 11 0.02
55 328 0.50
56 65 0.10
57 108 0.16
60 12 0.02
61 128 0.19
62 9 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (55 bp):
AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTC
Found at i:2267447 original size:116 final size:110
Alignment explanation
Indices: 2267303--2268089 Score: 1033
Period size: 116 Copynumber: 6.9 Consensus size: 110
2267293 TTTTCTTTTT
2267303 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACA
1 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACA
* * *
2267368 CAAGTTGGTGGCA-CTTCCCAGTCCTCAAAGAGTAGGATGCCTTTTC
66 CAAGTTGGTGGCACCTT-TCAGTCCTCAAAGAGCAGGACGCC-TTTC
* * *
2267414 TTTTTAAAGGCCACACAAGTTGGTGGCACCTTTCAGTCCTTAAAGAGGAGGACGCCTTTCAAAGC
1 -----AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGC
*
2267479 CCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATGCCTTTC
61 CCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTC
* *
2267529 AAAGCCCACACAAGTTGGTGGCA-CTTCCCAGTCCTCAAAGAGCAGGACACCTTTTCTTTTTAAA
1 AAAGCCCACACAAGTTGGTGGCACCTT-TCAGTCCTCAAAGAGCAGGACGCC-TTTC-----AAA
2267593 GCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTC
59 GCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTC
* *
2267645 AAAGCCCACACAAGTTGGTGGCA-CTTCCCAGTCCTCAAAGAGCAGGACACCTTTTCTTTTTAAA
1 AAAGCCCACACAAGTTGGTGGCACCTT-TCAGTCCTCAAAGAGCAGGACGCC-TTTC-----AAA
* * * *
2267709 GCCCACACAAGTTGGTGACACCTTTCAGTCTTCAAAGAGCATGATGCCTTTC
59 GCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTC
*
2267761 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCGTTCAAAGCCCACA
1 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACA
*
2267826 CAAGTTGGTGGCACCTTTCAGTTCTCAAAGAGCAGGACGCCTTTC
66 CAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTC
** *
2267871 AAAGCCCACACAAGTTGGTGGCATTTTTTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCA
1 AAAGCCCACACAAGTTGGTGGCA--CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCA
** *
2267936 CACAAGTTGGTGGCATTTTTTTTAGTCCTCAAAGAGCAGGACGCCTTTC
64 CACAAGTTGGTGGCA--CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTC
** * * * *
2267985 AAAGCCCACACAAGTTGGTGGCATTTTTTTAGTCCTCAAAGAGTAGGATGCCTTTGAAAGCCCAC
1 AAAGCCCACACAAGTTGGTGGCA-CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCAC
*
2268050 ACAAGTTGGTGGCA-CTTCCCAGTCCTCAAAGAGCAGGACG
65 ACAAGTTGGTGGCACCTT-TCAGTCCTCAAAGAGCAGGACG
2268090 TTCTCTCCTT
Statistics
Matches: 620, Mismatches: 37, Indels: 33
0.90 0.05 0.05
Matches are distributed among these distances:
109 3 0.00
110 117 0.19
111 24 0.04
112 51 0.08
113 53 0.09
114 51 0.08
115 7 0.01
116 308 0.50
117 6 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (110 bp):
AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACA
CAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTC
Found at i:2267507 original size:171 final size:170
Alignment explanation
Indices: 2267018--2268089 Score: 1215
Period size: 171 Copynumber: 6.2 Consensus size: 170
2267008 CTCTTTCAGC
*
2267018 CCTT-CCAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACC
1 CCTTCCCAGTCCTCAAAGAGCAGGACGCC--TTTCTTTT-AAAGCCCACACAAGTTGGTGGCACC
* *
2267082 TTT-AGTCCTCAAAGAGCAAGATGCCTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTT
63 TTTCAGTCCTCAAAGAGCAGGACGCC---TTTC-----AAAGCCCACACAAGTTGGTGGCACCTT
* *
2267146 T-AGTCCTCAAAGTGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
120 TCAGTCCTCAAAGAGCAGGACGCC-TTT-C----AAAGCCCACACAAGTTGGTGGCA
** * * * * * * * * *
2267202 CCTT-TTAGTCCTCAAAAAGAAGGACGCCTTCCCCTTCAAAGCCCAAACGAGCTGATGGCACCTT
1 CCTTCCCAGTCCTCAAAGAGCAGGACGCCTT-TCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
* *
2267266 CCAGTCCTCAAAGAGCAGGACACCTTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
65 TCAGTCCTCAAAGAGCAGGACGCC----TTTC-----AAAGCCCACACAAGTTGGTGGCACCTTT
2267331 CAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
121 CAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
2267381 -CTTCCCAGTCCTCAAAGAGTAGGATGCCTTTTCTTTTTAAAGGCCACACAAGTTGGTGGCACCT
1 CCTTCCCAGTCCTCAAAGAGCAGGACGCC-TTTC-TTTTAAAGCCCACACAAGTTGGTGGCACCT
* *
2267445 TTCAGTCCTTAAAGAGGAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTC
64 TTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTC
*
2267510 AAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA
129 AAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
*
2267552 -CTTCCCAGTCCTCAAAGAGCAGGACACCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCT
1 CCTTCCCAGTCCTCAAAGAGCAGGACGCC-TTTC-TTTTAAAGCCCACACAAGTTGGTGGCACCT
*
2267616 TTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA-CTTCCCAGTCCT
64 TTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTT-TCAGTCCT
* *
2267680 CAAAGAGCAGGACACCTTTTCTTTTTAAAGCCCACACAAGTTGGTGACA
128 CAAAGAGCAGGACGCC-TTTC-----AAAGCCCACACAAGTTGGTGGCA
* * * *
2267729 CCTT-TCAGTCTTCAAAGAGCATGATGCCTTTC----AAAGCCCACACAAGTTGGTGGCACCTTT
1 CCTTCCCAGTCCTCAAAGAGCAGGACGCCTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
* *
2267789 CAGTCCTCAAAGAGCAGGACGCCGTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTTCTCAA
66 CAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAA
2267854 AGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
131 AGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
** *** **
2267894 TTTTTTTTAGTCCTCAAAGAGCAGGACGCCTTTC----AAAGCCCACACAAGTTGGTGGCATTTT
1 -CCTTCCCAGTCCTCAAAGAGCAGGACGCCTTTCTTTTAAAGCCCACACAAGTTGGTGGCA--CC
* ** *
2267955 TTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTTTAGTCC
63 TTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA-CCTTTCAGTCC
* * *
2268020 TCAAAGAGTAGGATGCCTTTGAAAGCCCACACAAGTTGGTGGCA
127 TCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
2268064 -CTTCCCAGTCCTCAAAGAGCAGGACG
1 CCTTCCCAGTCCTCAAAGAGCAGGACG
2268090 TTCTCTCCTT
Statistics
Matches: 792, Mismatches: 75, Indels: 58
0.86 0.08 0.06
Matches are distributed among these distances:
165 22 0.03
166 2 0.00
167 47 0.06
168 22 0.03
169 51 0.06
170 55 0.07
171 306 0.39
172 7 0.01
176 8 0.01
177 41 0.05
178 6 0.01
179 43 0.05
180 46 0.06
182 26 0.03
183 23 0.03
184 67 0.08
185 20 0.03
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (170 bp):
CCTTCCCAGTCCTCAAAGAGCAGGACGCCTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
CAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAA
AGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:2268490 original size:61 final size:60
Alignment explanation
Indices: 2268129--2268496 Score: 362
Period size: 61 Copynumber: 6.1 Consensus size: 60
2268119 AAGCAGGACG
* *
2268129 TCTTTT-AAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTT
1 TCTTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCTAGTCCTTAAAGAGCAGGATG-CTTT
*
2268190 TCCTTTT-AAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTTAAAGAGCAGGACGC---
1 T-CTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTTAAAGAGCAGGATGCTTT
* * * *
2268247 -C-GTTCAAAGCCCACACAAGTTGGTGACATTTTCAAGT-TTTCAAAGAGCAGGATGCTTT
1 TCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTT-AAAGAGCAGGATGCTTT
* * * * *
2268305 CTCTTTGCAAAGACCACTCGAGTTGGTGGCATTTTCCAGTCCTTAAAGAGCAGGATGC-TT
1 -TCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTTAAAGAGCAGGATGCTTT
* * ** * *
2268365 TCTTTTTGCAAAGACCACTCAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGGA-GCTTTT
1 TC-TTTT-CAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTTAAAGAGCA-GGATGC-TTT
** *
2268428 TCTTTTCAAAGCCCACATGAGTTGGTGGCACTTTT-TAGTCCTTAAAGAGTAGGATGCCTTT
1 TCTTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCTAGTCCTTAAAGAGCAGGATG-CTTT
2268489 TCCTTTTC
1 T-CTTTTC
2268497 TCCTTTGTCC
Statistics
Matches: 260, Mismatches: 28, Indels: 37
0.80 0.09 0.11
Matches are distributed among these distances:
54 4 0.02
55 44 0.17
59 2 0.01
60 10 0.04
61 150 0.58
62 46 0.18
63 4 0.02
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.31
Consensus pattern (60 bp):
TCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTTAAAGAGCAGGATGCTTT
Found at i:2268558 original size:45 final size:43
Alignment explanation
Indices: 2268486--2268647 Score: 141
Period size: 42 Copynumber: 3.7 Consensus size: 43
2268476 GTAGGATGCC
* *
2268486 TTTTCCTTTTCTCCTTTGTCCTTAAAGAGCAGCACACACTTCA
1 TTTTCCTTTTCTCTTTTGTCCTCAAAGAGCAGCACACACTTCA
* * *
2268529 TTCCCTT-CTTTTCTCTTTTGTCCTCAAAGAGCAGGACGCACTTTA
1 TT---TTCCTTTTCTCTTTTGTCCTCAAAGAGCAGCACACACTTCA
* * * * * *
2268574 TTTTCCTCTT-TCTTTTGTCCTCAAAGAGAAGGACGCATTTCG
1 TTTTCCTTTTCTCTTTTGTCCTCAAAGAGCAGCACACACTTCA
* * *
2268616 TTTTCCTTTTTTCCTTTATCCTCGAAA-AGCAG
1 TTTTCCTTTTCTCTTTTGTCCTC-AAAGAGCAG
2268648 GATGTACTCT
Statistics
Matches: 99, Mismatches: 14, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
42 39 0.39
43 20 0.20
44 3 0.03
45 35 0.35
46 2 0.02
ACGTcount: A:0.19, C:0.27, G:0.12, T:0.41
Consensus pattern (43 bp):
TTTTCCTTTTCTCTTTTGTCCTCAAAGAGCAGCACACACTTCA
Found at i:2268853 original size:61 final size:61
Alignment explanation
Indices: 2268731--2268853 Score: 167
Period size: 61 Copynumber: 2.0 Consensus size: 61
2268721 GGACGCCTTG
* * * *
2268731 CAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGTAGGACGCCTTTTCTTTT
1 CAAAGCCCACACAAGTTGGTGACACCTTCTAGTCCTCAAAGAGCAGGACACCTTTTATTTT
* * *
2268792 CAAAGCCCACACGAGTTGGTGACACTTTTTAGTCCTCAAAGAGCAGGACACAC-TTTATTTT
1 CAAAGCCCACACAAGTTGGTGACACCTTCTAGTCCTCAAAGAGCAGGACAC-CTTTTATTTT
2268853 C
1 C
2268854 CTTTTCTCTT
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
61 53 0.98
62 1 0.02
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.28
Consensus pattern (61 bp):
CAAAGCCCACACAAGTTGGTGACACCTTCTAGTCCTCAAAGAGCAGGACACCTTTTATTTT
Found at i:2268909 original size:42 final size:44
Alignment explanation
Indices: 2268818--2269360 Score: 451
Period size: 42 Copynumber: 12.5 Consensus size: 44
2268808 TGGTGACACT
*
2268818 TTTTAGTCCTCAAAGAGCAGGACACACTT-TATTTTCCTTTTCTC
1 TTTT-GTCCTCAAAGAGCAGGACACACTTCCATTTTCCTTTTCTC
2268862 TTTTGTCCTCAAAGAGCAGGACACA-TTCCA-TTTCCTTTTCTC
1 TTTTGTCCTCAAAGAGCAGGACACACTTCCATTTTCCTTTTCTC
* * *
2268904 TTTTGTCCTCAAAGAGCAGGACAC-GTTCCA-TTCCCTTTTTTCCC
1 TTTTGTCCTCAAAGAGCAGGACACACTTCCATTTTCC--TTTTCTC
* * * * * *
2268948 CTTTCTCCTCAAACAGTAGGACGCACTT-TATTTTCCTTTTCTC
1 TTTTGTCCTCAAAGAGCAGGACACACTTCCATTTTCCTTTTCTC
* * * *
2268991 CTTTGTCCTCAAAGAGTAGGACAC-GTTCCA-TTTCCTTTTTTCCC
1 TTTTGTCCTCAAAGAGCAGGACACACTTCCATTTTCC--TTTTCTC
** * * * *
2269035 CCTTGTCCTCAAACAGCAGGACGCACTT-TATTTTCATTTTCTCC
1 TTTTGTCCTCAAAGAGCAGGACACACTTCCATTTTCCTTTTCT-C
2269079 TTTT-TCCTCAAAGAGCAGGACACA-TTCCA-TTTCCTTTTCTC
1 TTTTGTCCTCAAAGAGCAGGACACACTTCCATTTTCCTTTTCTC
* * * *
2269120 CTTTGTCCTCAAAGAGCAGGACAC-GTTCCATTCCCTT-TTTTTCCC
1 TTTTGTCCTCAAAGAGCAGGACACACTTCCATT---TTCCTTTTCTC
* * * *
2269165 TCTTGTCCTCAAAGAGCAGGACGCACTT-TATTTTTCTTTTCTC
1 TTTTGTCCTCAAAGAGCAGGACACACTTCCATTTTCCTTTTCTC
* * * *
2269208 CTTTGTCCTCAAAAAGCAGGACA-AGTTCCA-TTTCCTTATTTTCCCC
1 TTTTGTCCTCAAAGAGCAGGACACACTTCCATTTTCC---TTTT-CTC
* * *
2269254 TTTTGTCCTCAAGGAGCAGGACGCACTT-TATTTTCCTTTT-TC
1 TTTTGTCCTCAAAGAGCAGGACACACTTCCATTTTCCTTTTCTC
* * * *
2269296 TTTTGTCCTCAAAGAGCAAGACGCA-TTTCATTTTCCTTTTTTC
1 TTTTGTCCTCAAAGAGCAGGACACACTTCCATTTTCCTTTTCTC
* * *
2269339 CTTTGTCCTAAAAAAGCAGGAC
1 TTTTGTCCTCAAAGAGCAGGAC
2269361 GTACTCTTTT
Statistics
Matches: 405, Mismatches: 64, Indels: 61
0.76 0.12 0.12
Matches are distributed among these distances:
41 6 0.01
42 134 0.33
43 121 0.30
44 64 0.16
45 46 0.11
46 26 0.06
47 8 0.02
ACGTcount: A:0.21, C:0.28, G:0.13, T:0.38
Consensus pattern (44 bp):
TTTTGTCCTCAAAGAGCAGGACACACTTCCATTTTCCTTTTCTC
Found at i:2268999 original size:87 final size:87
Alignment explanation
Indices: 2268823--2269360 Score: 418
Period size: 87 Copynumber: 6.2 Consensus size: 87
2268813 ACACTTTTTA
* * * * * *
2268823 GTCCTCAAAGAGCAGGACACACTT-TATTTTCC--TTTTCTCTTTTGTCCTCAAAGAGCAGGACA
1 GTCCTCAAAGAGCAGGACAC-GTTCCA-TTTCCTTTTTTCCCCTTTGTCCTCAAACAGCAGGACG
* *
2268885 CA-TTCCA-TTTCCTTTTCTCTTTT
64 CACTT-TATTTTCCTTTTCTCCTTT
* * *
2268908 GTCCTCAAAGAGCAGGACACGTTCCATTCCCTTTTTTCCCCTTTCTCCTCAAACAGTAGGACGCA
1 GTCCTCAAAGAGCAGGACACGTTCCATTTCCTTTTTTCCCCTTTGTCCTCAAACAGCAGGACGCA
2268973 CTTTATTTTCCTTTTCTCCTTT
66 CTTTATTTTCCTTTTCTCCTTT
* *
2268995 GTCCTCAAAGAGTAGGACACGTTCCATTTCCTTTTTTCCCCCTTGTCCTCAAACAGCAGGACGCA
1 GTCCTCAAAGAGCAGGACACGTTCCATTTCCTTTTTTCCCCTTTGTCCTCAAACAGCAGGACGCA
*
2269060 CTTTATTTTCATTTTCTCCTTT
66 CTTTATTTTCCTTTTCTCCTTT
* * * *
2269082 TTCCTCAAAGAGCAGGACACATTCCATTTCC--TTTTCTCCTTTGTCCTCAAAGAGCAGGA--CA
1 GTCCTCAAAGAGCAGGACACGTTCCATTTCCTTTTTTCCCCTTTGTCCTCAAACAGCAGGACGCA
* * *
2269143 CGTTCCA-TTCCCTTTTTTTCCCTCTT
66 C-TT-TATTTTCC-TTTTCT-CCT-TT
* * *
2269169 GTCCTCAAAGAGCAGGACGCAC-TT-TATTT--TTCTTTTCTCCTTTGTCCTCAAAAAGCAGGAC
1 GTCCTCAAAGAGCAGGA--CACGTTCCATTTCCTT-TTTTCCCCTTTGTCCTCAAACAGCAGGAC
* * * *
2269230 -AAGTTCCA-TTTCCTTATTTTCCCCTTTT
63 GCACTT-TATTTTCC---TTTTCTCC-TTT
* * * * *
2269258 GTCCTCAAGGAGCAGGACGCAC-TT-TATTTTCC-TTTTT--CTTTTGTCCTCAAAGAGCAAGAC
1 GTCCTCAAAGAGCAGGA--CACGTTCCA-TTTCCTTTTTTCCCCTTTGTCCTCAAACAGCAGGAC
*
2269318 GCA-TTTCATTTTCCTTTTTTCCTTT
63 GCACTTT-ATTTTCCTTTTCTCCTTT
* *
2269343 GTCCTAAAAAAGCAGGAC
1 GTCCTCAAAGAGCAGGAC
2269361 GTACTCTTTT
Statistics
Matches: 381, Mismatches: 47, Indels: 52
0.79 0.10 0.11
Matches are distributed among these distances:
83 4 0.01
84 11 0.03
85 69 0.18
86 36 0.09
87 148 0.39
88 61 0.16
89 39 0.10
90 12 0.03
91 1 0.00
ACGTcount: A:0.21, C:0.29, G:0.13, T:0.38
Consensus pattern (87 bp):
GTCCTCAAAGAGCAGGACACGTTCCATTTCCTTTTTTCCCCTTTGTCCTCAAACAGCAGGACGCA
CTTTATTTTCCTTTTCTCCTTT
Found at i:2269407 original size:35 final size:34
Alignment explanation
Indices: 2269332--2269404 Score: 96
Period size: 35 Copynumber: 2.2 Consensus size: 34
2269322 TTCATTTTCC
2269332 TTTTTTCCTTTGTCCTAAAAAAGCAGGACGTACT
1 TTTTTTCCTTTGTCCTAAAAAAGCAGGACGTACT
* * *
2269366 CTTTTTCGCTTTGTCCTCAAGAAGCAGGACG--CT
1 TTTTTTC-CTTTGTCCTAAAAAAGCAGGACGTACT
2269399 TTTTTT
1 TTTTTT
2269405 TTCTTTCTTC
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
33 7 0.21
34 6 0.18
35 21 0.62
ACGTcount: A:0.21, C:0.22, G:0.16, T:0.41
Consensus pattern (34 bp):
TTTTTTCCTTTGTCCTAAAAAAGCAGGACGTACT
Found at i:2270073 original size:78 final size:78
Alignment explanation
Indices: 2269870--2270144 Score: 295
Period size: 79 Copynumber: 3.5 Consensus size: 78
2269860 TCGGTAACCC
* * * * * *
2269870 AAAACACCAATTTTTCACAATAGGGGATACTCCAACCCCGTTA-TTTCTAAGGGGATACTTCAAC
1 AAAACACCGATTTTTCATAAT-CGGGATACTCCAACCCCATTATTTTC-GAGGGGATACTCCAAC
***
2269934 CCCGGCCTTATTTCT
64 CCCGATTTTATTTCT
* * *
2269949 AAATCATCGATTTTTCATAATCGAGGATACTCCAACCCCATTATTTTCGAGGGGATGCTCCAACC
1 AAAACACCGATTTTTCATAATCG-GGATACTCCAACCCCATTATTTTCGAGGGGATACTCCAACC
*
2270014 CCGATTTCTTTTTC-
65 CCGATTT-TATTTCT
* *
2270028 AAAATACCGATTTTT-ATAATCAGGGATACTCCAACCCTATTATTTTCGAGGGGATACTCCAACC
1 AAAACACCGATTTTTCATAATC-GGGATACTCCAACCCCATTATTTTCGAGGGGATACTCCAACC
*
2270092 TCGATTTTATTTCT
65 CCGATTTTATTTCT
** * *
2270106 GGAACACCAATTTTTCATAATCGGGGATACTCCAGCCCC
1 AAAACACCGATTTTTCATAATC-GGGATACTCCAACCCC
2270145 GTTGTTATCT
Statistics
Matches: 163, Mismatches: 27, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
77 5 0.03
78 63 0.39
79 86 0.53
80 9 0.06
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (78 bp):
AAAACACCGATTTTTCATAATCGGGATACTCCAACCCCATTATTTTCGAGGGGATACTCCAACCC
CGATTTTATTTCT
Found at i:2275874 original size:7 final size:7
Alignment explanation
Indices: 2275862--2275921 Score: 54
Period size: 7 Copynumber: 8.9 Consensus size: 7
2275852 ATCCTTTGCA
*
2275862 AAAAAAT
1 AAAAAAC
*
2275869 AAAAAAA
1 AAAAAAC
2275876 ATAAAAAC
1 A-AAAAAC
2275884 AAAAAAC
1 AAAAAAC
2275891 -AAAAAC
1 AAAAAAC
2275897 -AAAAAC
1 AAAAAAC
*
2275903 AAACAA-
1 AAAAAAC
*
2275909 AAAAACC
1 AAAAAAC
2275916 AAAAAA
1 AAAAAA
2275922 ACAACAAAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
6 16 0.36
7 22 0.50
8 6 0.14
ACGTcount: A:0.85, C:0.12, G:0.00, T:0.03
Consensus pattern (7 bp):
AAAAAAC
Found at i:2275881 original size:6 final size:6
Alignment explanation
Indices: 2275860--2275931 Score: 62
Period size: 6 Copynumber: 12.0 Consensus size: 6
2275850 GCATCCTTTG
*
2275860 CAAAAA -AATAAA -AAAAA TAAAAA CAAAAAA CAAAAA CAAAAA CAAACAA
1 CAAAAA CAA-AAA CAAAAA CAAAAA C-AAAAA CAAAAA CAAAAA CAAA-AA
*
2275909 -AAAAA CCAAAAA -AACAA CAAAAA
1 CAAAAA -CAAAAA CAAAAA CAAAAA
2275932 GGGTTTTGAT
Statistics
Matches: 56, Mismatches: 3, Indels: 14
0.77 0.04 0.19
Matches are distributed among these distances:
5 11 0.20
6 32 0.57
7 13 0.23
ACGTcount: A:0.83, C:0.14, G:0.00, T:0.03
Consensus pattern (6 bp):
CAAAAA
Found at i:2275887 original size:12 final size:11
Alignment explanation
Indices: 2275861--2275931 Score: 72
Period size: 11 Copynumber: 6.2 Consensus size: 11
2275851 CATCCTTTGC
*
2275861 AAAAAAATAAA
1 AAAAAAACAAA
2275872 AAAAATAA-AAA
1 AAAAA-AACAAA
*
2275883 CAAAAAACAAA
1 AAAAAAACAAA
2275894 AACAAAAACAAA
1 AA-AAAAACAAA
2275906 CAAAAAAACCAAA
1 -AAAAAAA-CAAA
*
2275919 AAAACAACAAA
1 AAAAAAACAAA
2275930 AA
1 AA
2275932 GGGTTTTGAT
Statistics
Matches: 52, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
10 2 0.04
11 22 0.42
12 22 0.42
13 6 0.12
ACGTcount: A:0.85, C:0.13, G:0.00, T:0.03
Consensus pattern (11 bp):
AAAAAAACAAA
Found at i:2275900 original size:19 final size:17
Alignment explanation
Indices: 2275860--2275922 Score: 63
Period size: 19 Copynumber: 3.5 Consensus size: 17
2275850 GCATCCTTTG
*
2275860 CAAAAAAATAAAAAAAA
1 CAAAAAAAAAAAAAAAA
*
2275877 TAAAAACAAAAAACAAAAA
1 CAAAAA-AAAAAA-AAAAA
*
2275896 CAAAAACAAACAAAAAAAC
1 CAAAAA-AAA-AAAAAAAA
2275915 CAAAAAAA
1 CAAAAAAA
2275923 CAACAAAAAG
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
17 5 0.13
18 7 0.18
19 24 0.62
20 3 0.08
ACGTcount: A:0.84, C:0.13, G:0.00, T:0.03
Consensus pattern (17 bp):
CAAAAAAAAAAAAAAAA
Found at i:2275920 original size:10 final size:9
Alignment explanation
Indices: 2275861--2275931 Score: 65
Period size: 9 Copynumber: 7.7 Consensus size: 9
2275851 CATCCTTTGC
*
2275861 AAAAAAATA
1 AAAAAAACA
*
2275870 AAAAAAATA
1 AAAAAAACA
2275879 AAAACAAA-A
1 AAAA-AAACA
2275888 AACAAAAACA
1 AA-AAAAACA
2275898 AAAACAAAC-
1 AAAA-AAACA
*
2275907 AAAAAAACC
1 AAAAAAACA
2275916 AAAAAAACA
1 AAAAAAACA
2275925 ACAAAAA
1 A-AAAAA
2275932 GGGTTTTGAT
Statistics
Matches: 55, Mismatches: 1, Indels: 11
0.82 0.01 0.16
Matches are distributed among these distances:
8 4 0.07
9 34 0.62
10 17 0.31
ACGTcount: A:0.85, C:0.13, G:0.00, T:0.03
Consensus pattern (9 bp):
AAAAAAACA
Found at i:2275927 original size:24 final size:23
Alignment explanation
Indices: 2275860--2275929 Score: 81
Period size: 24 Copynumber: 3.0 Consensus size: 23
2275850 GCATCCTTTG
*
2275860 CAAAAAAATAAAAAAAATAA-AAA
1 CAAAAAAACAAAAAAAA-AACAAA
2275883 C-AAAAAACAAAAACAAAAACAAA
1 CAAAAAAACAAAAA-AAAAACAAA
*
2275906 CAAAAAAACCAAAAAAACAACAAA
1 CAAAAAAA-CAAAAAAAAAACAAA
2275930 AAGGGTTTTG
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
22 13 0.32
23 8 0.20
24 14 0.34
25 6 0.15
ACGTcount: A:0.83, C:0.14, G:0.00, T:0.03
Consensus pattern (23 bp):
CAAAAAAACAAAAAAAAAACAAA
Found at i:2275930 original size:19 final size:17
Alignment explanation
Indices: 2275860--2275931 Score: 56
Period size: 19 Copynumber: 3.9 Consensus size: 17
2275850 GCATCCTTTG
2275860 CAAAAAAATAA-AAAAAA
1 CAAAAAAA-AACAAAAAA
* *
2275877 TAAAAACAAAAAACAAAAA
1 CAAAAA-AAAACA-AAAAA
*
2275896 CAAAAACAAACAAAAAAA
1 CAAAAAAAAAC-AAAAAA
2275914 CCAAAAAAACAACAAAAA
1 -CAAAAAAA-AACAAAAA
2275932 GGGTTTTGAT
Statistics
Matches: 44, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
17 7 0.16
18 11 0.25
19 23 0.52
20 3 0.07
ACGTcount: A:0.83, C:0.14, G:0.00, T:0.03
Consensus pattern (17 bp):
CAAAAAAAAACAAAAAA
Found at i:2276941 original size:22 final size:22
Alignment explanation
Indices: 2276916--2276973 Score: 68
Period size: 21 Copynumber: 2.7 Consensus size: 22
2276906 GACCCTTCTC
2276916 TTTTTTTGCTATTTTTT-CTTAG
1 TTTTTTTG-TATTTTTTGCTTAG
* *
2276938 TTTTTTTGT-TTTTTTGTTTTG
1 TTTTTTTGTATTTTTTGCTTAG
2276959 TTTTTTT-TATTTTTT
1 TTTTTTTGTATTTTTT
2276974 TTTTTGAAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
20 7 0.22
21 17 0.53
22 8 0.25
ACGTcount: A:0.05, C:0.03, G:0.09, T:0.83
Consensus pattern (22 bp):
TTTTTTTGTATTTTTTGCTTAG
Found at i:2276948 original size:8 final size:8
Alignment explanation
Indices: 2276937--2276979 Score: 50
Period size: 8 Copynumber: 5.1 Consensus size: 8
2276927 TTTTTTCTTA
2276937 GTTTTTTT
1 GTTTTTTT
2276945 GTTTTTTT
1 GTTTTTTT
2276953 GTTTTGTTT
1 GTTTT-TTT
*
2276962 TTTTTATTT
1 GTTTT-TTT
*
2276971 TTTTTTTT
1 GTTTTTTT
2276979 G
1 G
2276980 AAAGCTTATC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
8 16 0.52
9 15 0.48
ACGTcount: A:0.02, C:0.00, G:0.12, T:0.86
Consensus pattern (8 bp):
GTTTTTTT
Found at i:2276957 original size:13 final size:13
Alignment explanation
Indices: 2276941--2276979 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
2276931 TTCTTAGTTT
2276941 TTTTGTTTTTTTG
1 TTTTGTTTTTTTG
2276954 TTTTGTTTTTTT-
1 TTTTGTTTTTTTG
*
2276966 TATTTTTTTTTTTG
1 T-TTTGTTTTTTTG
2276980 AAAGCTTATC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
12 1 0.04
13 22 0.96
ACGTcount: A:0.03, C:0.00, G:0.10, T:0.87
Consensus pattern (13 bp):
TTTTGTTTTTTTG
Found at i:2277768 original size:13 final size:13
Alignment explanation
Indices: 2277750--2277775 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2277740 CAATTTTTTG
2277750 TGTATCGATACAT
1 TGTATCGATACAT
2277763 TGTATCGATACAT
1 TGTATCGATACAT
2277776 ACTTTGGTGT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2277772 original size:33 final size:33
Alignment explanation
Indices: 2277730--2277794 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
2277720 TACAAGCCAA
* *
2277730 TGTATCGATACA-ATTTTTTGTGTATCGATACAT
1 TGTATCGATACATA-CTTTGGTGTATCGATACAT
2277763 TGTATCGATACATACTTTGGTGTATCGATACA
1 TGTATCGATACATACTTTGGTGTATCGATACA
2277795 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATACTTTGGTGTATCGATACAT
Found at i:2277899 original size:20 final size:20
Alignment explanation
Indices: 2277847--2277901 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
2277837 CATATTTTTG
*
2277847 ATGTATCGATACATTGCAAC
1 ATGTATCGATACTTTGCAAC
*
2277867 ATGTATCGATACTTTG-AATT
1 ATGTATCGATACTTTGCAA-C
2277887 ATGTATCGATACTTT
1 ATGTATCGATACTTT
2277902 TAAGGGTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 2 0.06
20 30 0.94
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACTTTGCAAC
Found at i:2278494 original size:12 final size:12
Alignment explanation
Indices: 2278477--2278501 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2278467 TAAGGTAATT
2278477 TTAGCAAATTTA
1 TTAGCAAATTTA
2278489 TTAGCAAATTTA
1 TTAGCAAATTTA
2278501 T
1 T
2278502 GCATTCTCCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (12 bp):
TTAGCAAATTTA
Found at i:2280381 original size:13 final size:13
Alignment explanation
Indices: 2280363--2280399 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
2280353 AATCCCCCTG
*
2280363 TATCGATACAGTA
1 TATCGATACAATA
*
2280376 TATCGATACAATG
1 TATCGATACAATA
2280389 TATCGATACAA
1 TATCGATACAA
2280400 AGAAAAATGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.30
Consensus pattern (13 bp):
TATCGATACAATA
Found at i:2286550 original size:13 final size:13
Alignment explanation
Indices: 2286532--2286557 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2286522 CAATTTTTTG
2286532 TGTATCGATACAT
1 TGTATCGATACAT
2286545 TGTATCGATACAT
1 TGTATCGATACAT
2286558 ACTTTGGTGT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2286554 original size:33 final size:33
Alignment explanation
Indices: 2286512--2286576 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
2286502 TACAAGCCAA
* *
2286512 TGTATCGATACA-ATTTTTTGTGTATCGATACAT
1 TGTATCGATACATA-CTTTGGTGTATCGATACAT
2286545 TGTATCGATACATACTTTGGTGTATCGATACA
1 TGTATCGATACATACTTTGGTGTATCGATACA
2286577 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATACTTTGGTGTATCGATACAT
Found at i:2286681 original size:20 final size:20
Alignment explanation
Indices: 2286629--2286683 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
2286619 CATATTTTTG
*
2286629 ATGTATCGATACATTGCAAC
1 ATGTATCGATACTTTGCAAC
*
2286649 ATGTATCGATACTTTG-AATT
1 ATGTATCGATACTTTGCAA-C
2286669 ATGTATCGATACTTT
1 ATGTATCGATACTTT
2286684 TAAGGGTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 2 0.06
20 30 0.94
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACTTTGCAAC
Found at i:2290438 original size:13 final size:13
Alignment explanation
Indices: 2290420--2290445 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2290410 AATTTGGTCA
2290420 TGTATCGATACAT
1 TGTATCGATACAT
2290433 TGTATCGATACAT
1 TGTATCGATACAT
2290446 CTTGTGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2290549 original size:20 final size:21
Alignment explanation
Indices: 2290502--2290554 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
2290492 GCCAATCACC
*
2290502 TGTATCGATACATTCTTTGCA
1 TGTATCGATACATTCTGTGCA
*
2290523 AGTATCGATACATT-TG-GTCA
1 TGTATCGATACATTCTGTG-CA
2290543 TGTATCGATACA
1 TGTATCGATACA
2290555 ATGTATCGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 1 0.04
20 14 0.50
21 13 0.46
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTCTGTGCA
Found at i:2290560 original size:13 final size:13
Alignment explanation
Indices: 2290542--2290566 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2290532 ACATTTGGTC
2290542 ATGTATCGATACA
1 ATGTATCGATACA
2290555 ATGTATCGATAC
1 ATGTATCGATAC
2290567 TGTTCATTCT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2291167 original size:23 final size:22
Alignment explanation
Indices: 2291120--2291164 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 22
2291110 TTTCCTTTTC
2291120 TCTCCCCCTTAATCAAAAAATT
1 TCTCCCCCTTAATCAAAAAATT
2291142 TCTCCCCCTTAAT-AAAACAATT
1 TCTCCCCCTTAATCAAAA-AATT
2291164 T
1 T
2291165 TCTTTAATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.36, C:0.31, G:0.00, T:0.33
Consensus pattern (22 bp):
TCTCCCCCTTAATCAAAAAATT
Found at i:2292577 original size:20 final size:22
Alignment explanation
Indices: 2292536--2292580 Score: 67
Period size: 20 Copynumber: 2.1 Consensus size: 22
2292526 GCTGTGAGTG
*
2292536 TGGGGGCTGCCTGGTTGCGACC
1 TGGGGGCTGCCTGGTCGCGACC
2292558 TGGGGG-TGCC-GGTCGCGACC
1 TGGGGGCTGCCTGGTCGCGACC
2292578 TGG
1 TGG
2292581 TGAGTGTTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 12 0.55
21 4 0.18
22 6 0.27
ACGTcount: A:0.04, C:0.27, G:0.49, T:0.20
Consensus pattern (22 bp):
TGGGGGCTGCCTGGTCGCGACC
Found at i:2293039 original size:13 final size:13
Alignment explanation
Indices: 2293021--2293056 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
2293011 TTAAACCCTT
*
2293021 TGTATCGATACAC
1 TGTATCGATACAA
2293034 TGTATCGATACAA
1 TGTATCGATACAA
2293047 TGTATCGATA
1 TGTATCGATA
2293057 TAGAGAATGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2299332 original size:20 final size:21
Alignment explanation
Indices: 2299285--2299335 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
2299275 ACCAATCACC
*
2299285 TGTATCGATACATTCTTTGCA
1 TGTATCGATACATTCTGTGCA
*
2299306 AGTATCGATACATT-TG-GTCA
1 TGTATCGATACATTCTGTG-CA
2299326 TGTATCGATA
1 TGTATCGATA
2299336 AAATGTATCA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
19 1 0.04
20 12 0.46
21 13 0.50
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (21 bp):
TGTATCGATACATTCTGTGCA
Found at i:2310813 original size:20 final size:20
Alignment explanation
Indices: 2310784--2310860 Score: 93
Period size: 20 Copynumber: 3.9 Consensus size: 20
2310774 GTAAAAAGAT
2310784 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
* *
2310804 AGAATATATCGATACATTCA
1 AGAATGTATCGATACATTGA
* *
2310824 TA-CATGTATCGATATATTGA
1 -AGAATGTATCGATACATTGA
*
2310844 AAAATGTATCGATACAT
1 AGAATGTATCGATACAT
2310861 ATGGGTAAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
19 1 0.02
20 45 0.96
21 1 0.02
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.32
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:2312217 original size:20 final size:19
Alignment explanation
Indices: 2312192--2312266 Score: 96
Period size: 20 Copynumber: 3.8 Consensus size: 19
2312182 TTTACCCAGA
2312192 TGTATCGATACATTTTGCAT
1 TGTATCGATACATTTT-CAT
*
2312212 TGTATCGATACATTGCTCAT
1 TGTATCGATACATT-TTCAT
*
2312232 TGTATCGATACATTTTACAA
1 TGTATCGATACATTTT-CAT
*
2312252 TGTACCGATACATTT
1 TGTATCGATACATTT
2312267 AGGCATTTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
19 1 0.02
20 47 0.96
21 1 0.02
ACGTcount: A:0.28, C:0.17, G:0.13, T:0.41
Consensus pattern (19 bp):
TGTATCGATACATTTTCAT
Found at i:2314605 original size:51 final size:51
Alignment explanation
Indices: 2314549--2314786 Score: 295
Period size: 51 Copynumber: 4.6 Consensus size: 51
2314539 TTAAGTTTCT
** *
2314549 CAATTTTTCATAATCAGGGG-TACTCCAACCCCGGGTTTATTTCTAAAATAC
1 CAATTTTTCATAATC-GGGGATACTCCAACCCCGATTTTATTTCTAAAACAC
* * * *
2314600 TAATTTTTCACAATCGGGGATACTCCAACTCCGATTTTATTTTTAAAACAC
1 CAATTTTTCATAATCGGGGATACTCCAACCCCGATTTTATTTCTAAAACAC
*
2314651 CAATTTTTCACAATCGGGGATACTCCAACCCC-AGTTTTATTT-TCAAAACAC
1 CAATTTTTCATAATCGGGGATACTCCAACCCCGA-TTTTATTTCT-AAAACAC
* * *
2314702 CAA-TTTTCTATAATTGGGGATACTCCAACTCCGATTTTATTTCCAAAAACAC
1 CAATTTTTC-ATAATCGGGGATACTCCAACCCCGATTTTATTT-CTAAAACAC
*
2314754 CAATTTTTCATAATCGGGGATACTTCAACCCCG
1 CAATTTTTCATAATCGGGGATACTCCAACCCCG
2314787 TTAATCATCA
Statistics
Matches: 163, Mismatches: 16, Indels: 15
0.84 0.08 0.08
Matches are distributed among these distances:
50 11 0.07
51 115 0.71
52 32 0.20
53 5 0.03
ACGTcount: A:0.31, C:0.24, G:0.11, T:0.34
Consensus pattern (51 bp):
CAATTTTTCATAATCGGGGATACTCCAACCCCGATTTTATTTCTAAAACAC
Found at i:2314691 original size:102 final size:103
Alignment explanation
Indices: 2314549--2314785 Score: 329
Period size: 102 Copynumber: 2.3 Consensus size: 103
2314539 TTAAGTTTCT
* * *
2314549 CAATTTTTCATAATCAGGGG-TACTCCAACCCCGGGTTTA-TTTCTAAAATACTAATTTT-TCAC
1 CAATTTTTCATAATC-GGGGATACTCCAACCCCAGGTTTATTTTC-AAAACACCAATTTTCT-AC
**
2314611 AATCGGGGATACTCCAACTCCGATTTTATTT-TTAAAACAC
63 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACAC
* * *
2314651 CAATTTTTCACAATCGGGGATACTCCAACCCCAGTTTTATTTTCAAAACACCAATTTTCTATAAT
1 CAATTTTTCATAATCGGGGATACTCCAACCCCAGGTTTATTTTCAAAACACCAATTTTCTACAAT
*
2314716 TGGGGATACTCCAACTCCGATTTTATTTCCAAAAACAC
66 CGGGGATACTCCAACTCCGATTTTATTTCCAAAAACAC
*
2314754 CAATTTTTCATAATCGGGGATACTTCAACCCC
1 CAATTTTTCATAATCGGGGATACTCCAACCCC
2314786 GTTAATCATC
Statistics
Matches: 120, Mismatches: 11, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
101 4 0.03
102 74 0.62
103 42 0.35
ACGTcount: A:0.31, C:0.24, G:0.11, T:0.34
Consensus pattern (103 bp):
CAATTTTTCATAATCGGGGATACTCCAACCCCAGGTTTATTTTCAAAACACCAATTTTCTACAAT
CGGGGATACTCCAACTCCGATTTTATTTCCAAAAACAC
Found at i:2314974 original size:79 final size:79
Alignment explanation
Indices: 2314797--2315314 Score: 822
Period size: 79 Copynumber: 6.6 Consensus size: 79
2314787 TTAATCATCA
* * * *
2314797 GGGATACTCCAACCTCATTATTTCCGAGGGGATACTCCAACCCGGGCTTTATTCCT-AAATATTG
1 GGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTCCTAAAATATTG
* *
2314861 ATTTCTCATAATCA
66 ATTTCTCACAATCG
**
2314875 GGGATACTCCAACCTTGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTCCTAAAATATTG
1 GGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTCCTAAAATATTG
*
2314940 ATTTCTCATAATCG
66 ATTTCTCACAATCG
* * *
2314954 GGGATATTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAATATTG
1 GGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTCCTAAAATATTG
*
2315019 ATTTCTCACAATCA
66 ATTTCTCACAATCG
* * * *
2315033 GGAATACTCCAACCCCGTTATTTTTGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTG
1 GGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTCCTAAAATATTG
2315098 ATTTCTCACAATCG
66 ATTTCTCACAATCG
**
2315112 GGGATACTCCAACCCCGTTATTTTTTAGGGGATACTCCAACCCCGGCTTTATTCCTAAAATATTG
1 GGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTCCTAAAATATTG
2315177 ATTTCTCACAATCG
66 ATTTCTCACAATCG
* *
2315191 GGGATACTCCAACCCTGTTATTTTCGAGGGGATACTCTAACCCCGGCTTTATTCCTAAAATATTG
1 GGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTCCTAAAATATTG
*
2315256 ATTTCTCATAATCG
66 ATTTCTCACAATCG
*
2315270 GGGATACTCCAACCCCGTTATTTTCGCGGGGATACTCCAACCCCG
1 GGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCG
2315315 TTATTTTTGA
Statistics
Matches: 409, Mismatches: 30, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
78 52 0.13
79 357 0.87
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.32
Consensus pattern (79 bp):
GGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTCCTAAAATATTG
ATTTCTCACAATCG
Found at i:2315308 original size:28 final size:28
Alignment explanation
Indices: 2315268--2315340 Score: 119
Period size: 28 Copynumber: 2.6 Consensus size: 28
2315258 TTCTCATAAT
2315268 CGGGGATACTCCAACCCCGTTATTTTCG
1 CGGGGATACTCCAACCCCGTTATTTTCG
*
2315296 CGGGGATACTCCAACCCCGTTATTTTTG
1 CGGGGATACTCCAACCCCGTTATTTTCG
* *
2315324 AGGGGATACTCTAACCC
1 CGGGGATACTCCAACCC
2315341 TGATTTTATT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.21, C:0.30, G:0.22, T:0.27
Consensus pattern (28 bp):
CGGGGATACTCCAACCCCGTTATTTTCG
Found at i:2315318 original size:107 final size:107
Alignment explanation
Indices: 2315189--2315421 Score: 288
Period size: 107 Copynumber: 2.2 Consensus size: 107
2315179 TTCTCACAAT
* *
2315189 CGGGGATACTCCAACCCTGTTATTTTCGAGGGGATACTCTAACCCCGGCTTTATTC-CTAAAATA
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCTAACCCCGACTTTATTCTC-AAAATA
*** * * *
2315253 TTGATTTCTCATAATCGGGGATACTCCAACCCCGTTATTTTCG
65 CCAATTTCTCATAATCAGGGATACTCCAACCCCGTTATTTCCA
* * * *
2315296 CGGGGATACTCCAACCCCGTTATTTTTGAGGGGATACTCTAACCCTGATTTTATTTTCAAAATAC
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCTAACCCCGACTTTATTCTCAAAATAC
* * * **
2315361 CAATTTTTTATAATTAGGGATACTCCAACCTTGTTATTTCCA
66 CAATTTCTCATAATCAGGGATACTCCAACCCCGTTATTTCCA
*
2315403 AGGGGATACTCCAACCCCG
1 CGGGGATACTCCAACCCCG
2315422 ATTTTATTTC
Statistics
Matches: 107, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
107 106 0.99
108 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (107 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCTAACCCCGACTTTATTCTCAAAATAC
CAATTTCTCATAATCAGGGATACTCCAACCCCGTTATTTCCA
Found at i:2315330 original size:186 final size:187
Alignment explanation
Indices: 2315110--2315478 Score: 451
Period size: 186 Copynumber: 2.0 Consensus size: 187
2315100 TTCTCACAAT
* *
2315110 CGGGGATACTCCAACCCCGTTATTTTTTAGGGGATACTCCAACCCCGGCTTTATTC-CTAAAATA
1 CGGGGATACTCCAACCCCGTTATTTTTGAGGGGATACTCCAACCCCGACTTTATTCTC-AAAATA
*** * * * * *
2315174 TTGATTTCTCACAATCGGGGATACTCCAACCCTGTTATTTTCGAGGGGATACTCTAACCCCGGCT
65 CCAATTTCTCACAATCAGGGATACTCCAACCCTGTTATTTCCAAGGGGATACTCCAACCCCGACT
* **
2315239 TTA-TTCCTAAAATATTGA-TTTCTCATAATC-GGGGATA-CTCCAACCCCGTTATTTTCG
130 TTATTTCC-AAAACACCGATTTTC-CATAATCAGGGGATACCT-CAACCCCGTTATTTTCG
* * * *
2315296 CGGGGATACTCCAACCCCGTTATTTTTGAGGGGATACTCTAACCCTGATTTTATTTTCAAAATAC
1 CGGGGATACTCCAACCCCGTTATTTTTGAGGGGATACTCCAACCCCGACTTTATTCTCAAAATAC
* * * * * *
2315361 CAATTTTTTATAATTAGGGATACTCCAACCTTGTTATTTCCAAGGGGATACTCCAACCCCGATTT
66 CAATTTCTCACAATCAGGGATACTCCAACCCTGTTATTTCCAAGGGGATACTCCAACCCCGACTT
*
2315426 TATTTCCAGAACACCGATTTTCCATAATCAGGGGATACCTCAACCCCGTTATT
131 TATTTCCAAAACACCGATTTTCCATAATCAGGGGATACCTCAACCCCGTTATT
2315479 ATCTCCAAAA
Statistics
Matches: 154, Mismatches: 24, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
186 123 0.80
187 29 0.19
188 2 0.01
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.33
Consensus pattern (187 bp):
CGGGGATACTCCAACCCCGTTATTTTTGAGGGGATACTCCAACCCCGACTTTATTCTCAAAATAC
CAATTTCTCACAATCAGGGATACTCCAACCCTGTTATTTCCAAGGGGATACTCCAACCCCGACTT
TATTTCCAAAACACCGATTTTCCATAATCAGGGGATACCTCAACCCCGTTATTTTCG
Found at i:2315381 original size:79 final size:80
Alignment explanation
Indices: 2315297--2315478 Score: 215
Period size: 79 Copynumber: 2.3 Consensus size: 80
2315287 TTATTTTCGC
*** * * * *
2315297 GGGGATACTCCAACCCCGTTATTTTTGAGGGGATACTCTAACCCTGATTTTATTTTCAAAATACC
1 GGGGATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAACCCCGATTTTATTTCCAAAACACC
** *
2315362 AATTTTTTATAATTA
66 AATTTTCCATAATCA
** *
2315377 -GGGATACTCCAACCTTGTTATTTCCAAGGGGATACTCCAACCCCGATTTTATTTCCAGAACACC
1 GGGGATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAACCCCGATTTTATTTCCAAAACACC
*
2315441 GATTTTCCATAATCA
66 AATTTTCCATAATCA
2315456 GGGGATAC-CTCAACCCCGTTATT
1 GGGGATACTC-CAACCCCGTTATT
2315479 ATCTCCAAAA
Statistics
Matches: 84, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
79 66 0.79
80 18 0.21
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.34
Consensus pattern (80 bp):
GGGGATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAACCCCGATTTTATTTCCAAAACACC
AATTTTCCATAATCA
Found at i:2318084 original size:94 final size:93
Alignment explanation
Indices: 2317842--2318084 Score: 296
Period size: 94 Copynumber: 2.6 Consensus size: 93
2317832 AAAATTTTAT
* * *
2317842 TTATCGGGGACACTCCAACCCCATTCCTCCGAGGGGATACTCCAACCCCATTTTTAAACTTGTCT
1 TTATCGGGGACACTCCAA-CCCATTCCTTCGAGAGGATACTCCAA-CCCTTTTTTAAACTTGTCT
2317907 AGATACTTCCTATTTTTGCCTAAAATATCA
64 AGATACTTCCTATTTTTGCCTAAAATATCA
* * * * *
2317937 TTATCAGGGACACTCCAACCCATT-CTTCCGA-AGGGATACACTAACCTTGTTTTTAAATTTGT-
1 TTATCGGGGACACTCCAACCCATTCCTT-CGAGA-GGATACTCCAACCCT-TTTTTAAACTTGTC
2317999 TAAGATACTTCCTATTTTTG-CTAAAAATATCA
63 T-AGATACTTCCTATTTTTGCCT-AAAATATCA
* *
2318031 TTGTCGGGGACACTCTAACCTCATTCCTTCGAGAGGATACTCCAACCCTTTTTT
1 TTATCGGGGACACTCCAACC-CATTCCTTCGAGAGGATACTCCAACCCTTTTTT
2318085 TCAACAAAAA
Statistics
Matches: 126, Mismatches: 14, Indels: 17
0.80 0.09 0.11
Matches are distributed among these distances:
93 7 0.06
94 79 0.63
95 36 0.29
96 4 0.03
ACGTcount: A:0.27, C:0.26, G:0.13, T:0.34
Consensus pattern (93 bp):
TTATCGGGGACACTCCAACCCATTCCTTCGAGAGGATACTCCAACCCTTTTTTAAACTTGTCTAG
ATACTTCCTATTTTTGCCTAAAATATCA
Found at i:2319954 original size:22 final size:20
Alignment explanation
Indices: 2319913--2319954 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
2319903 GGCTCTCGTT
*
2319913 AAAAATTTTCCCTTTGATAA
1 AAAAATTTTCCCCTTGATAA
2319933 AAAAATTTCTCCCCCTTGATAA
1 AAAAATTT-T-CCCCTTGATAA
2319955 TTGGTTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 8 0.42
21 1 0.05
22 10 0.53
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.36
Consensus pattern (20 bp):
AAAAATTTTCCCCTTGATAA
Found at i:2321672 original size:22 final size:21
Alignment explanation
Indices: 2321637--2321686 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
2321627 TTTGTTGATG
*
2321637 ATTTTG-A-TGAAAAATGAAGT
1 ATTTTGAAGTGAAAAAT-AAGA
2321657 ATTTTGAAGTGAAAAATAAGA
1 ATTTTGAAGTGAAAAATAAGA
*
2321678 AATTTGAAG
1 ATTTTGAAG
2321687 AAGATTTGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 6 0.23
21 12 0.46
22 8 0.31
ACGTcount: A:0.48, C:0.00, G:0.20, T:0.32
Consensus pattern (21 bp):
ATTTTGAAGTGAAAAATAAGA
Found at i:2321683 original size:21 final size:22
Alignment explanation
Indices: 2321644--2321686 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
2321634 ATGATTTTGA
* *
2321644 TGAAAAATGAAGTATTTTGAAG
1 TGAAAAATGAAGAAATTTGAAG
2321666 TGAAAAAT-AAGAAATTTGAAG
1 TGAAAAATGAAGAAATTTGAAG
2321687 AAGATTTGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.51, C:0.00, G:0.21, T:0.28
Consensus pattern (22 bp):
TGAAAAATGAAGAAATTTGAAG
Found at i:2321810 original size:13 final size:13
Alignment explanation
Indices: 2321792--2321817 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2321782 AATAGTAACC
2321792 TTGTATCGATACA
1 TTGTATCGATACA
2321805 TTGTATCGATACA
1 TTGTATCGATACA
2321818 ACGAATGTAT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2321852 original size:20 final size:18
Alignment explanation
Indices: 2321804--2321854 Score: 59
Period size: 17 Copynumber: 2.8 Consensus size: 18
2321794 GTATCGATAC
*
2321804 ATTGTATCGATACAACGA
1 ATTGTATCGATACAAAGA
*
2321822 A-TGTATTGATACAAAGAA
1 ATTGTATCGATACAAAG-A
2321840 TATTGTATCGATACA
1 -ATTGTATCGATACA
2321855 TCTGGGTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 13 0.48
18 2 0.07
19 1 0.04
20 11 0.41
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.31
Consensus pattern (18 bp):
ATTGTATCGATACAAAGA
Found at i:2326399 original size:3 final size:3
Alignment explanation
Indices: 2326391--2326420 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
2326381 AGTCACCATT
*
2326391 ATC ATC ATC ATC ATC ATC ATC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
2326421 GTCTTTGATG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.30, C:0.33, G:0.00, T:0.37
Consensus pattern (3 bp):
ATC
Found at i:2328132 original size:13 final size:13
Alignment explanation
Indices: 2328114--2328140 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2328104 TACAGTGAAC
2328114 ATGTATCGATACA
1 ATGTATCGATACA
2328127 ATGTATCGATACA
1 ATGTATCGATACA
2328140 A
1 A
2328141 AGCATAATGT
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:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2330785 original size:30 final size:30
Alignment explanation
Indices: 2330703--2331005 Score: 220
Period size: 30 Copynumber: 9.9 Consensus size: 30
2330693 ATCTCTTTTC
2330703 AAGTCCACGACTCAGTGGCATCTTTTTTCGTCA
1 AAGTCCACGACTCAGTGGCATC--TTTTC-TCA
* ** * *
2330736 AAATCCATAACTCAGTGGCATCTTGTCCCA
1 AAGTCCACGACTCAGTGGCATCTTTTCTCA
* * *
2330766 AAGTCCACGACTCAATGGCATTTTTTTTCA
1 AAGTCCACGACTCAGTGGCATCTTTTCTCA
* *
2330796 AAGTCCACAACTCAGTGGCATCTTTTTTTCA
1 AAGTCCACGACTCAGTGGCATC-TTTTCTCA
* *
2330827 AAGTCCACAACTCAATGGCATTTCTTTTCT--
1 AAGTCCACGACTCAGTGGCA--TCTTTTCTCA
* *
2330857 AAGTCCACGACTTAGTGGCATCCTTTTCTTCT
1 AAGTCCACGACTCAGTGGCAT-CTTTTC-TCA
* * *
2330889 AAGTCCACGACTCAATGGCATCTCTTCCCA
1 AAGTCCACGACTCAGTGGCATCTTTTCTCA
* * * *
2330919 AAATCCATGACTCTGTGGCACCTTTTTCTTTTCA
1 AAGTCCACGACTCAGTGGCATC-TTTTC---TCA
* * * *
2330953 AAGTCCACAACTCTGTGGCACCCTTT-T--
1 AAGTCCACGACTCAGTGGCATCTTTTCTCA
* *
2330980 AAGTCCACAACTCTGTGGCATCTTTT
1 AAGTCCACGACTCAGTGGCATCTTTT
2331006 TCCTTTTAAG
Statistics
Matches: 220, Mismatches: 39, Indels: 28
0.77 0.14 0.10
Matches are distributed among these distances:
27 24 0.11
28 1 0.00
29 7 0.03
30 79 0.36
31 40 0.18
32 24 0.11
33 24 0.11
34 21 0.10
ACGTcount: A:0.24, C:0.28, G:0.14, T:0.34
Consensus pattern (30 bp):
AAGTCCACGACTCAGTGGCATCTTTTCTCA
Found at i:2330813 original size:93 final size:90
Alignment explanation
Indices: 2330698--2330911 Score: 252
Period size: 93 Copynumber: 2.3 Consensus size: 90
2330688 TTCAAATCTC
* *
2330698 TTTTCAAGTCCACGACTCAGTGGCATCTTTTTTCGTCAAAATCCATAACTCAGTGGCA-TCTTGT
1 TTTTCAAGTCCACGACTCAGTGGCATCTTTTTT--TCAAAATCCACAACTCAATGGCATTCTT-T
2330762 CCCAAAGTCCACGACTCAATGGCAT-TTT
63 -CCAAAGTCCACGACTCAATGGCATCTTT
* * *
2330790 TTTTCAAAGTCCACAACTCAGTGGCATCTTTTTTTCAAAGTCCACAACTCAATGGCATTTCTTTT
1 TTTTC-AAGTCCACGACTCAGTGGCATCTTTTTTTCAAAATCCACAACTCAATGGCA-TTCTTTC
* * *
2330855 CTAAGTCCACGACTTAGTGGCATCCTTT
64 CAAAGTCCACGACTCAATGGCAT-CTTT
* *
2330883 TCTTCTAAGTCCACGACTCAATGGCATCT
1 TTTTC-AAGTCCACGACTCAGTGGCATCT
2330912 CTTCCCAAAA
Statistics
Matches: 105, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
91 40 0.38
92 6 0.06
93 59 0.56
ACGTcount: A:0.25, C:0.27, G:0.14, T:0.34
Consensus pattern (90 bp):
TTTTCAAGTCCACGACTCAGTGGCATCTTTTTTTCAAAATCCACAACTCAATGGCATTCTTTCCA
AAGTCCACGACTCAATGGCATCTTT
Found at i:2330840 original size:61 final size:61
Alignment explanation
Indices: 2330698--2331025 Score: 261
Period size: 61 Copynumber: 5.3 Consensus size: 61
2330688 TTCAAATCTC
* * * * *
2330698 TTTTC-AAGTCCACGACTCAGTGGCATCTTTTTTCGTCAAAATCCATAACTCAGTGGCATC-TT
1 TTTTCAAAGTCCACAACTCAATGGCAT-TTCTTT--TCAAAGTCCACAACTCAGTGGCATCTTT
* ** * *
2330760 GTCCCAAAGTCCACGACTCAATGGCATTTTTTTTCAAAGTCCACAACTCAGTGGCATCTTT
1 TTTTCAAAGTCCACAACTCAATGGCATTTCTTTTCAAAGTCCACAACTCAGTGGCATCTTT
* * *
2330821 TTTTCAAAGTCCACAACTCAATGGCATTTCTTTTCTAAGTCCACGACTTAGTGGCATCCTTT
1 TTTTCAAAGTCCACAACTCAATGGCATTTCTTTTCAAAGTCCACAACTCAGTGGCAT-CTTT
* * * * ** * ** * *
2330883 TCTTCTAAGTCCACGACTCAATGGCATCTCTTCCCAAAATCCATGACTCTGTGGCACCTTTTT
1 TTTTCAAAGTCCACAACTCAATGGCATTTCTTTTCAAAGTCCACAACTCAGTGGCA--TCTTT
** ** *
2330946 CTTTTCAAAGTCCACAACTCTGTGGCA-CCCTTTT--AAGTCCACAACTCTGTGGCATCTTT
1 -TTTTCAAAGTCCACAACTCAATGGCATTTCTTTTCAAAGTCCACAACTCAGTGGCATCTTT
**
2331005 TTCCTTTTAAGTCCACAACTC
1 TT--TTCAAAGTCCACAACTC
2331026 CGTGGCACCT
Statistics
Matches: 218, Mismatches: 40, Indels: 18
0.79 0.14 0.07
Matches are distributed among these distances:
58 2 0.01
59 4 0.02
60 38 0.17
61 68 0.31
62 57 0.26
63 27 0.12
64 22 0.10
ACGTcount: A:0.24, C:0.29, G:0.13, T:0.34
Consensus pattern (61 bp):
TTTTCAAAGTCCACAACTCAATGGCATTTCTTTTCAAAGTCCACAACTCAGTGGCATCTTT
Found at i:2330937 original size:123 final size:123
Alignment explanation
Indices: 2330766--2331025 Score: 294
Period size: 123 Copynumber: 2.1 Consensus size: 123
2330756 TCTTGTCCCA
* * ** *
2330766 AAGTCCACGACTCAATGGCATTTTTTTTCAAAGTCCACAACTCAGTGGCA-TCTTT-TTTTCAAA
1 AAGTCCACGACTCAATGGCATCTCTTCCCAAAATCCACAACTCAGTGGCACTCTTTCTTTTCAAA
* * *
2330829 GTCCACAACTCAATGGCATTTCTTTTCTAAGTCCACGACT-TAGTGGCATCCTTTT-CTTCT
66 GTCCACAACTCAATGGCA--CCCTTT-TAAGTCCACAACTCT-GTGGCATCCTTTTCCTTCT
** * *
2330889 AAGTCCACGACTCAATGGCATCTCTTCCCAAAATCCATGACTCTGTGGCACCTTTTTCTTTTCAA
1 AAGTCCACGACTCAATGGCATCTCTTCCCAAAATCCACAACTCAGTGGCA-CTCTTTCTTTTCAA
** * *
2330954 AGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCTGTGGCATCTTTTTCCTTTT
65 AGTCCACAACTCAATGGCACCCTTTTAAGTCCACAACTCTGTGGCATCCTTTTCCTTCT
*
2331013 AAGTCCACAACTC
1 AAGTCCACGACTC
2331026 CGTGGCACCT
Statistics
Matches: 115, Mismatches: 17, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
123 66 0.57
124 21 0.18
125 4 0.03
126 24 0.21
ACGTcount: A:0.24, C:0.29, G:0.13, T:0.35
Consensus pattern (123 bp):
AAGTCCACGACTCAATGGCATCTCTTCCCAAAATCCACAACTCAGTGGCACTCTTTCTTTTCAAA
GTCCACAACTCAATGGCACCCTTTTAAGTCCACAACTCTGTGGCATCCTTTTCCTTCT
Found at i:2331012 original size:33 final size:33
Alignment explanation
Indices: 2330796--2332188 Score: 1075
Period size: 34 Copynumber: 42.5 Consensus size: 33
2330786 TTTTTTTTCA
* **
2330796 AAGTCCACAACTCAGTGGCATCTTTTT--TTCA
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
** * *
2330827 AAGTCCACAACTCAATGGCAT-TTCTT--TTCT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
* ** * *
2330857 AAGTCCACGACTTAGTGGCATCCTTTT-CTTCT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
* ** * **
2330889 AAGTCCACGACTCAATGGCATC-TCTTCC--CA
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
* ** * *
2330919 AAATCCATGACTCTGTGGCACCTTTTT-CTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
*
2330951 CAAAGTCCACAACTCTGTGGCA-C-----CCTTTT
1 --AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
*
2330980 AAGTCCACAACTCTGTGGCATCTTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
* *
2331013 AAGTCCACAACTCCGTGGCACCTTGTTCCTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
** *
2331046 AAGTCCACAACTCTATGGTATCTTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
* *
2331079 AAGTCCACAACTCCGTGGCACCTTGTTCCTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
* * * * *
2331112 GAGTCCACAATTCTGTGGCA-CCTTTTCTTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
** * * *
2331144 AAGTCCATGACTCTGTGGCACCCTTTTCCCTTTT
1 AAGTCCACAACTCCGTGGCA-TCTTTTTCCTTTT
* * *
2331178 AAGCCCACACCTCCGTGGCATCCCTTTTTCC-TAT
1 AAGTCCACAACTCCGTGGCAT--CTTTTTCCTTTT
* *
2331212 AAGTCCACAACTCTGTGGCACCTTTTT-CTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
* *
2331244 AAAAGCCCACAACTCCATGGCACTCTTTTTCCTTTT
1 --AAGTCCACAACTCCGTGGCA-TCTTTTTCCTTTT
* *
2331280 AAGTCCACAACTCCGTGGCACCTTGTTCCTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
* * *
2331313 AAGTCCACAACTCTGTGGCA-CCTTTTCTTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
* ** *
2331345 AAGTTCATGACTCCGTGGCACCTTTTTCCCTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTT-CCTTTT
* * * *
2331379 AAGCCCATACCTCCGTGGCATCCCTTTTTCC-TGT
1 AAGTCCACAACTCCGTGGCAT--CTTTTTCCTTTT
* * *
2331413 AAGTCCATAACTCCATGGCA-CTTTTTTCTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
* *
2331445 AAAAGCCCACAACTCCGTGACACTCTTTTTCCTTTT
1 --AAGTCCACAACTCCGTGGCA-TCTTTTTCCTTTT
2331481 AAGTCCACAACTCCGTGGCA-C-----CCTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
*
2331508 AAGTCCACAACTCCATGGCATCTTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
* * *
2331541 AAGTCCACAACTACGTGGCACCTTGTTCCTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
* * *
2331574 AAGT-C-C-ACTCCATGGCA-CCTTTTCTTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
* ** ** * *
2331603 ATGTCCATGACTATGTGGCACCCTTTTCCCTTTT
1 AAGTCCACAACTCCGTGGCA-TCTTTTTCCTTTT
* * *
2331637 AAGCCCACACCTCCGTGGCATCCCTTTTTCC-TGT
1 AAGTCCACAACTCCGTGGCAT--CTTTTTCCTTTT
* * *
2331671 AAGTCCACAACTCTGTGGCACCTTTTT-CTATTAA
1 AAGTCCACAACTCCGTGGCATCTTTTTCCT-TT-T
*
2331705 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCA-TCTTTTTCCTTTT
* * *
2331739 AAGTCCACAACTCCATGGCACCTTGTTCCTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
* *
2331772 AAATCCAAAACTCCGTGGCATCTTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
* *
2331805 CAA-TCCACAACTCCGTGGCA-CCTTTTCTTTTT
1 -AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
** *
2331837 AAGTCCATGACTCCGTGGCACCTTTGTTCCTTTT
1 AAGTCCACAACTCCGTGGCATCTTT-TTCCTTTT
*
2331871 AAGTCCACAACTCCATGGCATCTTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
* **
2331904 AAGTCCACAACTCCGTGGCACCTTGATCCTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
* * *
2331937 AAGTCCACAACTCCATGGCA-CCTTTTCTTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
* ** * * *
2331969 AAGTCTATGACTCTGTGGCACCCTTTTCCCTTTT
1 AAGTCCACAACTCCGTGGCA-TCTTTTTCCTTTT
* * *
2332003 AAGCCCAC-ACTTCTGTGGCATCCCTTTTCCCTTTT
1 AAGTCCACAAC-TCCGTGGCAT--CTTTTTCCTTTT
* ** * * * *
2332038 AAGTTCACAACTCTATGGTACCTTATTCCATTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
* *
2332071 AAGTCCACAACTCCGTGGCA-CCTTTTCTTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
* * *
2332103 AAGTCCACAACTCCGTGGTACCCTTTTCCCTTTT
1 AAGTCCACAACTCCGTGGCA-TCTTTTTCCTTTT
* * * *
2332137 AAGCCCACACCTCCGTGGCATCCCTTTTTTC-TGT
1 AAGTCCACAACTCCGTGGCAT--CTTTTTCCTTTT
2332171 AAGTCCACAACTCCGTGG
1 AAGTCCACAACTCCGTGG
2332189 TACCTTTAAG
Statistics
Matches: 1091, Mismatches: 206, Indels: 127
0.77 0.14 0.09
Matches are distributed among these distances:
27 45 0.04
28 2 0.00
29 17 0.02
30 54 0.05
31 41 0.04
32 176 0.16
33 326 0.30
34 343 0.31
35 61 0.06
36 26 0.02
ACGTcount: A:0.20, C:0.31, G:0.13, T:0.36
Consensus pattern (33 bp):
AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
Found at i:2331057 original size:66 final size:65
Alignment explanation
Indices: 2330796--2332188 Score: 1185
Period size: 66 Copynumber: 21.3 Consensus size: 65
2330786 TTTTTTTTCA
* ** ** *
2330796 AAGTCCACAACTCAGTGGCATCTTTTT--TTCAAAGTCCACAACTCAATGGCA---TTTCTTTTC
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTCCTTT-
2330856 T
65 T
* ** * * * ** * * **
2330857 AAGTCCACGACTTAGTGGCATCCTTTT-CTTCTAAGTCCACGACTCAATGGCATCTCTTCC--CA
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTCCTTTT
* ** * * *
2330919 AAATCCATGACTCTGTGGCACCTTTTT-CTTTTCAAAGTCCACAACTCTGTGGCA-C----CCTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT--AAGTCCACAACTCCGTGGCACCTTTTCCTT
2330978 TT
64 TT
*
2330980 AAGTCCACAACTCTGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTGTTCCTTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTT-TTCCTTT
2331045 T
65 T
** *
2331046 AAGTCCACAACTCTATGGTATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTGTTCCTTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTT-TTCCTTT
2331111 T
65 T
* * * * * ** *
2331112 GAGTCCACAATTCTGTGGCA-CCTTTTCTTTTTAAGTCCATGACTCTGTGGCACCCTTTTCCCTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCA-CCTTTT-CCTT
2331176 TT
64 TT
* * * * *
2331178 AAGCCCACACCTCCGTGGCATCCCTTTTTCC-TATAAGTCCACAACTCTGTGGCACCTTTTTCTT
1 AAGTCCACAACTCCGTGGCAT--CTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTCCTT
2331242 TT
64 TT
* *
2331244 AAAAGCCCACAACTCCATGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTGTTCC
1 --AAGTCCACAACTCCGTGGCA-TCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTT-TTCC
2331309 TTTT
62 TTTT
* * * * **
2331313 AAGTCCACAACTCTGTGGCA-CCTTTTCTTTTTAAGTTCATGACTCCGTGGCACCTTTTTCCCTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACC-TTTT-CCTT
2331377 TT
64 TT
* * * * * * * *
2331379 AAGCCCATACCTCCGTGGCATCCCTTTTTCC-TGTAAGTCCATAACTCCATGGCACTTTTTTCTT
1 AAGTCCACAACTCCGTGGCAT--CTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTCCTT
2331443 TT
64 TT
* *
2331445 AAAAGCCCACAACTCCGTGACACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCA-C----CCT
1 --AAGTCCACAACTCCGTGGCA-TCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTCCT
2331505 TTT
63 TTT
* *
2331508 AAGTCCACAACTCCATGGCATCTTTTTCCTTTTAAGTCCACAACTACGTGGCACCTTGTTCCTTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTT-TTCCTTT
2331573 T
65 T
* * * * ** **
2331574 AAGT-C-C-ACTCCATGGCA-CCTTTTCTTTTTATGTCCATGACTATGTGGCACCCTTTTCCCTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCA-CCTTTT-CCTT
2331635 TT
64 TT
* * * * *
2331637 AAGCCCACACCTCCGTGGCATCCCTTTTTCC-TGTAAGTCCACAACTCTGTGGCACCTTTTTCTA
1 AAGTCCACAACTCCGTGGCAT--CTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTCCT-
*
2331701 TTAA
63 TT-T
* *
2331705 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCATGGCACCTTGTTCCTT
1 AAGTCCACAACTCCGTGGCA-TCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTT-TTCCTT
2331770 TT
64 TT
* * *
2331772 AAATCCAAAACTCCGTGGCATCTTTTTCCTTTTCAA-TCCACAACTCCGTGGCACCTTTTCTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT-AAGTCCACAACTCCGTGGCACCTTTTCCTTT
2331836 T
65 T
** * * *
2331837 AAGTCCATGACTCCGTGGCACCTTTGTTCCTTTTAAGTCCACAACTCCATGGCATCTTTTTCCTT
1 AAGTCCACAACTCCGTGGCATCTTT-TTCCTTTTAAGTCCACAACTCCGTGGCA-CCTTTTCCTT
2331902 TT
64 TT
* ** * *
2331904 AAGTCCACAACTCCGTGGCACCTTGATCCTTTTAAGTCCACAACTCCATGGCACCTTTTCTTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTCCTTTT
* ** * * * * *
2331969 AAGTCTATGACTCTGTGGCACCCTTTTCCCTTTTAAGCCCAC-ACTTCTGTGGCATCCCTTTTCC
1 AAGTCCACAACTCCGTGGCA-TCTTTTTCCTTTTAAGTCCACAAC-TCCGTGGCA--CCTTTT-C
2332033 CTTTT
61 CTTTT
* ** * * * * *
2332038 AAGTTCACAACTCTATGGTACCTTATTCCATTTAAGTCCACAACTCCGTGGCACCTTTTCTTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTCCTTTT
* * * * *
2332103 AAGTCCACAACTCCGTGGTACCCTTTTCCCTTTTAAGCCCACACCTCCGTGGCATCCCTTTT--T
1 AAGTCCACAACTCCGTGGCA-TCTTTTTCCTTTTAAGTCCACAACTCCGTGGCA--CCTTTTCCT
2332166 TCTGT
63 T-T-T
2332171 AAGTCCACAACTCCGTGG
1 AAGTCCACAACTCCGTGG
2332189 TACCTTTAAG
Statistics
Matches: 1106, Mismatches: 158, Indels: 129
0.79 0.11 0.09
Matches are distributed among these distances:
59 2 0.00
60 51 0.05
61 66 0.06
62 80 0.07
63 30 0.03
64 19 0.02
65 145 0.13
66 310 0.28
67 111 0.10
68 239 0.22
69 53 0.05
ACGTcount: A:0.20, C:0.31, G:0.13, T:0.36
Consensus pattern (65 bp):
AAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTCCTTTT
Found at i:2331505 original size:27 final size:27
Alignment explanation
Indices: 2331475--2331562 Score: 104
Period size: 27 Copynumber: 3.0 Consensus size: 27
2331465 CACTCTTTTT
2331475 CCTTTTAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
*
2331502 CCTTTTAAGTCCACAACTCCATGGCATC
1 CCTTTTAAGTCCACAACTCCGTGGCA-C
*
2331530 TTTTTCCTTTTAAGTCCACAACTACGTGGCAC
1 -----CCTTTTAAGTCCACAACTCCGTGGCAC
2331562 C
1 C
2331563 TTGTTCCTTT
Statistics
Matches: 52, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
27 26 0.50
28 1 0.02
32 1 0.02
33 24 0.46
ACGTcount: A:0.23, C:0.34, G:0.12, T:0.31
Consensus pattern (27 bp):
CCTTTTAAGTCCACAACTCCGTGGCAC
Found at i:2332351 original size:87 final size:88
Alignment explanation
Indices: 2332195--2332464 Score: 353
Period size: 87 Copynumber: 3.0 Consensus size: 88
2332185 GTGGTACCTT
* *
2332195 TAAGTCCAATATCGCTAGCCTTGAATCAACATATTGGCACCTTGTCTTTAAGACCAATGTCGCTG
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTG
2332260 GCCTTGAATCAGCACATTGGCA-
66 GCCTTGAATCAGCACATTGGCAC
* * * * *
2332282 TAAGCCCAATATCGCTGGCCTTAAATCAGCATATTGGCACCTTGTATTTAAGACCAATGTTGCTA
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTG
*
2332347 GCCTTGAATCAACACATTGGCACC
66 GCCTTGAATCAGCACATTGGCA-C
* * * *
2332371 TTTAAGTCCAATATCGCTGGCCTGGAATCAGCACATTGGCACCTTAACCATCTTTAAGTCCAATG
1 --TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT----GTCTTTAAGACCAATG
*
2332436 TCGATGGCCTTGAATCAGCACATTGGCAC
60 TCGCTGGCCTTGAATCAGCACATTGGCAC
2332465 GTTCATCTTT
Statistics
Matches: 156, Mismatches: 19, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
87 79 0.51
91 39 0.25
94 1 0.01
95 37 0.24
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (88 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTG
GCCTTGAATCAGCACATTGGCAC
Done.