Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 71 of 203
Found at i:22763375 original size:7 final size:7
Alignment explanation
Indices: 22763358--22763408 Score: 75
Period size: 7 Copynumber: 6.9 Consensus size: 7
22763348 AAAAGGAAGA
22763358 AAAAGAAG
1 AAAA-AAG
22763366 AAAAAAG
1 AAAAAAG
22763373 AAAAAAAG
1 -AAAAAAG
22763381 AAAAAAGG
1 AAAAAA-G
22763389 AAAAAAG
1 AAAAAAG
22763396 AAAAAAG
1 AAAAAAG
22763403 AAAAAA
1 AAAAAA
22763409 AGGAAGAAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
7 23 0.56
8 18 0.44
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:22763377 original size:8 final size:8
Alignment explanation
Indices: 22763354--22763420 Score: 77
Period size: 8 Copynumber: 8.4 Consensus size: 8
22763344 AAAAAAAAGG
22763354 AAGAAAAA
1 AAGAAAAA
22763362 GAAG-AAAA
1 -AAGAAAAA
22763370 AAGAAAAA
1 AAGAAAAA
22763378 AAG-AAAA
1 AAGAAAAA
*
22763385 AAGGAAAA
1 AAGAAAAA
22763393 AAG-AAAA
1 AAGAAAAA
22763400 AAGAAAAA
1 AAGAAAAA
22763408 AAGGAAGAAA
1 AA-GAA-AAA
22763418 AAG
1 AAG
22763421 GGGGTTCAAT
Statistics
Matches: 53, Mismatches: 0, Indels: 10
0.84 0.00 0.16
Matches are distributed among these distances:
7 17 0.32
8 24 0.45
9 7 0.13
10 5 0.09
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (8 bp):
AAGAAAAA
Found at i:22763409 original size:15 final size:15
Alignment explanation
Indices: 22763341--22763410 Score: 97
Period size: 15 Copynumber: 4.7 Consensus size: 15
22763331 GCAGCCCAGC
**
22763341 AGAAAAAAA-AAGGA
1 AGAAAAAAAGAAAAA
22763355 AGAAAAAGAAGAAAAA
1 AGAAAAA-AAGAAAAA
22763371 AGAAAAAAAGAAAAA
1 AGAAAAAAAGAAAAA
*
22763386 AGGAAAAAAGAAAAA
1 AGAAAAAAAGAAAAA
22763401 AGAAAAAAAG
1 AGAAAAAAAG
22763411 GAAGAAAAAG
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
14 7 0.14
15 33 0.66
16 10 0.20
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (15 bp):
AGAAAAAAAGAAAAA
Found at i:22764007 original size:20 final size:22
Alignment explanation
Indices: 22763970--22764013 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
22763960 AATTTTGTGT
*
22763970 AAAAAAATCCAGTGTTTTCAAAA
1 AAAAAAATCCAGT-TTTCCAAAA
22763993 AAAAAAATCCA-TTTTCCAAAA
1 AAAAAAATCCAGTTTTCCAAAA
22764014 TTTTTAGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 8 0.40
22 1 0.05
23 11 0.55
ACGTcount: A:0.55, C:0.16, G:0.05, T:0.25
Consensus pattern (22 bp):
AAAAAAATCCAGTTTTCCAAAA
Found at i:22764032 original size:19 final size:18
Alignment explanation
Indices: 22764010--22764066 Score: 64
Period size: 17 Copynumber: 3.2 Consensus size: 18
22764000 TCCATTTTCC
*
22764010 AAAATTTTTAGTGTCTTCTA
1 AAAATTTTT-GTGT-TTCAA
22764030 AAAATTTTTGTGTTTC-A
1 AAAATTTTTGTGTTTCAA
*
22764047 AAAATTTTCGT-TTTCAA
1 AAAATTTTTGTGTTTCAA
22764064 AAA
1 AAA
22764067 TTTCCGTGCT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
16 4 0.11
17 15 0.43
18 3 0.09
19 4 0.11
20 9 0.26
ACGTcount: A:0.35, C:0.09, G:0.09, T:0.47
Consensus pattern (18 bp):
AAAATTTTTGTGTTTCAA
Found at i:22764051 original size:17 final size:17
Alignment explanation
Indices: 22764005--22764069 Score: 78
Period size: 16 Copynumber: 3.7 Consensus size: 17
22763995 AAAAATCCAT
*
22764005 TTTCCAAAATTTTTAGTG
1 TTTCAAAAATTTTT-GTG
22764023 TCTTCTAAAAATTTTTGTG
1 T-TTC-AAAAATTTTTGTG
*
22764042 TTTCAAAAATTTTCGT-
1 TTTCAAAAATTTTTGTG
22764058 TTTCAAAAATTT
1 TTTCAAAAATTT
22764070 CCGTGCTATG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
16 12 0.28
17 11 0.26
18 4 0.09
19 7 0.16
20 9 0.21
ACGTcount: A:0.31, C:0.11, G:0.08, T:0.51
Consensus pattern (17 bp):
TTTCAAAAATTTTTGTG
Found at i:22764092 original size:177 final size:174
Alignment explanation
Indices: 22763896--22764245 Score: 655
Period size: 177 Copynumber: 2.0 Consensus size: 174
22763886 TTGATTTCAT
22763896 TGCTATGTTGAGTGAATATCACCGATTCGTGTTAAATACGATACGTGTTTAATAAAAAATCAAAA
1 TGCTATGTTGAGTGAATATCACCGATTCGTGTTAAATACGATACGTGTTTAATAAAAAATCAAAA
22763961 ATTTTGTGTAAAAAAATCCAGTGTTTTCAAAAAAAAAAATCCATTTTCCAAAATTTTTAGTGTCT
66 ATTTTGTGTAAAAAAATCCAGTGTTTTC---AAAAAAAATCCATTTTCCAAAATTTTTAGTGTCT
22764026 TCTAAAAATTTTTGTGTTTCAAAAATTTTCGTTTTCAAAAATTTCCG
128 TCTAAAAATTTTTGTGTTTCAAAAATTTTCGTTTTCAAAAATTTCCG
*
22764073 TGCTATGTTGAGTGAATATCACCGATTCGTGTTAGATACGATACGTGTTTAATAAAAAATCAAAA
1 TGCTATGTTGAGTGAATATCACCGATTCGTGTTAAATACGATACGTGTTTAATAAAAAATCAAAA
22764138 ATTTTGTGTAAAAAAATCCAGTGTTTTCAAAAAAAATCCATTTTCCAAAATTTTTAGTGTCTTCT
66 ATTTTGTGTAAAAAAATCCAGTGTTTTCAAAAAAAATCCATTTTCCAAAATTTTTAGTGTCTTCT
*
22764203 AAAAATTTTTGTGTTTCAAATATTTTCGTTTTCAAAAATTTCC
131 AAAAATTTTTGTGTTTCAAAAATTTTCGTTTTCAAAAATTTCC
22764246 ATGTTTCAAA
Statistics
Matches: 171, Mismatches: 2, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
174 79 0.46
177 92 0.54
ACGTcount: A:0.36, C:0.13, G:0.12, T:0.39
Consensus pattern (174 bp):
TGCTATGTTGAGTGAATATCACCGATTCGTGTTAAATACGATACGTGTTTAATAAAAAATCAAAA
ATTTTGTGTAAAAAAATCCAGTGTTTTCAAAAAAAATCCATTTTCCAAAATTTTTAGTGTCTTCT
AAAAATTTTTGTGTTTCAAAAATTTTCGTTTTCAAAAATTTCCG
Found at i:22764186 original size:18 final size:20
Alignment explanation
Indices: 22764147--22764187 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
22764137 AATTTTGTGT
*
22764147 AAAAAAATCCAGTGTTTTCA
1 AAAAAAATCCAGTGTTTCCA
22764167 AAAAAAATCCA-T-TTTCCA
1 AAAAAAATCCAGTGTTTCCA
22764185 AAA
1 AAA
22764188 TTTTTAGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 8 0.40
19 1 0.05
20 11 0.55
ACGTcount: A:0.51, C:0.17, G:0.05, T:0.27
Consensus pattern (20 bp):
AAAAAAATCCAGTGTTTCCA
Found at i:22764254 original size:17 final size:17
Alignment explanation
Indices: 22764183--22764345 Score: 132
Period size: 17 Copynumber: 9.4 Consensus size: 17
22764173 ATCCATTTTC
* *
22764183 CAAAATTTTTAGTGTCTT
1 CAAAAATTTTCGTGT-TT
*
22764201 CTAAAAATTTTTGTGTTT
1 C-AAAAATTTTCGTGTTT
*
22764219 CAAATATTTTCGT-TTT
1 CAAAAATTTTCGTGTTT
* *
22764235 CAAAAATTTCCATGTTT
1 CAAAAATTTTCGTGTTT
22764252 CAAAAATTTTCGTGTTTT
1 CAAAAATTTTCGTG-TTT
* *
22764270 CAAAATTTTTCGTATTT
1 CAAAAATTTTCGTGTTT
** *
22764287 CAAAAATCCTCTTGTTTT
1 CAAAAATTTTCGTG-TTT
22764305 CAAAAA-TTTCGGTGTTT
1 CAAAAATTTTC-GTGTTT
** *
22764322 TGAAAATTTTCATGTTTT
1 CAAAAATTTTCGTG-TTT
22764340 CAAAAA
1 CAAAAA
22764346 AAAATATCGT
Statistics
Matches: 114, Mismatches: 24, Indels: 14
0.75 0.16 0.09
Matches are distributed among these distances:
16 13 0.11
17 48 0.42
18 41 0.36
19 12 0.11
ACGTcount: A:0.31, C:0.12, G:0.09, T:0.48
Consensus pattern (17 bp):
CAAAAATTTTCGTGTTT
Found at i:22764345 original size:35 final size:34
Alignment explanation
Indices: 22764184--22764423 Score: 142
Period size: 35 Copynumber: 6.7 Consensus size: 34
22764174 TCCATTTTCC
* * * * *
22764184 AAAATTTTTAGTGTCTTCTAAAAATTTTTGTGTTTC
1 AAAAATTTTCGTGTTTTC-AAAAA-TTTCGTGTTTT
* * *
22764220 AAATATTTTC--GTTTTCAAAAATTTCCATGTTTC
1 AAAAATTTTCGTGTTTTCAAAAATTT-CGTGTTTT
* * *
22764253 AAAAATTTTCGTGTTTTCAAAATTTTTCGTATTTC
1 AAAAATTTTCGTGTTTTCAAAA-ATTTCGTGTTTT
** *
22764288 AAAAATCCTCTTGTTTTCAAAAATTTCGGTGTTTT
1 AAAAATTTTCGTGTTTTCAAAAATTTC-GTGTTTT
* * * *
22764323 GAAAATTTTCATGTTTTCAAAAAAAAATATCGTGTTTC
1 AAAAATTTTCGTGTTTTC----AAAAATTTCGTGTTTT
* *
22764361 ATAAATTTTGGTTTTTTGTTTTCAAAAATTTCGGTGTTTT
1 AAAAATTTTCG-----TGTTTTCAAAAATTTC-GTGTTTT
*
22764401 GAAAATTTTCGTGTTTTCAAAAA
1 AAAAATTTTCGTGTTTTCAAAAA
22764424 AAAAATATCG
Statistics
Matches: 158, Mismatches: 31, Indels: 31
0.72 0.14 0.14
Matches are distributed among these distances:
32 3 0.02
33 20 0.13
34 9 0.06
35 66 0.42
36 10 0.06
38 13 0.08
39 16 0.10
40 14 0.09
43 7 0.04
ACGTcount: A:0.30, C:0.10, G:0.11, T:0.48
Consensus pattern (34 bp):
AAAAATTTTCGTGTTTTCAAAAATTTCGTGTTTT
Found at i:22764384 original size:23 final size:23
Alignment explanation
Indices: 22764357--22764401 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
22764347 AAATATCGTG
* * *
22764357 TTTCATAAATTTTGGTTTTTTGT
1 TTTCAAAAATTTCGGTGTTTTGT
22764380 TTTCAAAAATTTCGGTGTTTTG
1 TTTCAAAAATTTCGGTGTTTTG
22764402 AAAATTTTCG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.07, G:0.16, T:0.58
Consensus pattern (23 bp):
TTTCAAAAATTTCGGTGTTTTGT
Found at i:22764388 original size:39 final size:39
Alignment explanation
Indices: 22764336--22764463 Score: 120
Period size: 40 Copynumber: 3.3 Consensus size: 39
22764326 AATTTTCATG
22764336 TTTTC-AAAAAAAAATATCGTGTTTCATAAATTTTGGTT
1 TTTTCAAAAAAAAAATATCGTGTTTCATAAATTTTGGTT
****** * * * *
22764374 TTTTGTTTTCAAAAATTTCGGTGTTTTGA-AAATTTTCGTG
1 TTTTCAAAAAAAAAATATC-GTG-TTTCATAAATTTTGGTT
22764414 TTTTCAAAAAAAAAATATCGTGTTTCATAAATTTTGG-T
1 TTTTCAAAAAAAAAATATCGTGTTTCATAAATTTTGGTT
22764452 TTTT-AAAAAAAA
1 TTTTCAAAAAAAA
22764464 TATTATGTCT
Statistics
Matches: 67, Mismatches: 19, Indels: 9
0.71 0.20 0.09
Matches are distributed among these distances:
37 8 0.12
38 12 0.18
39 19 0.28
40 24 0.36
41 4 0.06
ACGTcount: A:0.36, C:0.07, G:0.12, T:0.45
Consensus pattern (39 bp):
TTTTCAAAAAAAAAATATCGTGTTTCATAAATTTTGGTT
Found at i:22764388 original size:78 final size:79
Alignment explanation
Indices: 22764298--22764455 Score: 300
Period size: 78 Copynumber: 2.0 Consensus size: 79
22764288 AAAAATCCTC
22764298 TTGTTTTCAAAAATTTCGGTGTTTTGAAAATTTTCATGTTTTC-AAAAAAAAATATCGTGTTTCA
1 TTGTTTTCAAAAATTTCGGTGTTTTGAAAATTTTCATGTTTTCAAAAAAAAAATATCGTGTTTCA
22764362 TAAATTTTGGTTTT
66 TAAATTTTGGTTTT
*
22764376 TTGTTTTCAAAAATTTCGGTGTTTTGAAAATTTTCGTGTTTTCAAAAAAAAAATATCGTGTTTCA
1 TTGTTTTCAAAAATTTCGGTGTTTTGAAAATTTTCATGTTTTCAAAAAAAAAATATCGTGTTTCA
22764441 TAAATTTTGGTTTT
66 TAAATTTTGGTTTT
22764455 T
1 T
22764456 AAAAAAAATA
Statistics
Matches: 78, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
78 42 0.54
79 36 0.46
ACGTcount: A:0.30, C:0.08, G:0.13, T:0.49
Consensus pattern (79 bp):
TTGTTTTCAAAAATTTCGGTGTTTTGAAAATTTTCATGTTTTCAAAAAAAAAATATCGTGTTTCA
TAAATTTTGGTTTT
Found at i:22764400 original size:18 final size:17
Alignment explanation
Indices: 22764377--22764423 Score: 67
Period size: 18 Copynumber: 2.7 Consensus size: 17
22764367 TTTGGTTTTT
22764377 TGTTTTCAAAAATTTCGG
1 TGTTTTCAAAAATTTC-G
* *
22764395 TGTTTTGAAAATTTTCG
1 TGTTTTCAAAAATTTCG
22764412 TGTTTTCAAAAA
1 TGTTTTCAAAAA
22764424 AAAAATATCG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
17 11 0.44
18 14 0.56
ACGTcount: A:0.30, C:0.09, G:0.15, T:0.47
Consensus pattern (17 bp):
TGTTTTCAAAAATTTCG
Found at i:22764795 original size:58 final size:56
Alignment explanation
Indices: 22764733--22764844 Score: 206
Period size: 56 Copynumber: 2.0 Consensus size: 56
22764723 AAAAAGAGAA
22764733 TTTATTAGGTGTCCGATCACACCTAAAAAAAAAAAGATCGGTGGCGACTCCTTTTTTT
1 TTTATTAGGTGTCCGATCACACCT--AAAAAAAAAGATCGGTGGCGACTCCTTTTTTT
22764791 TTTATTAGGTGTCCGATCACACCTAAAAAAAAAGATCGGTGGCGACTCCTTTTT
1 TTTATTAGGTGTCCGATCACACCTAAAAAAAAAGATCGGTGGCGACTCCTTTTT
22764845 CAAATAAAAT
Statistics
Matches: 54, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
56 30 0.56
58 24 0.44
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (56 bp):
TTTATTAGGTGTCCGATCACACCTAAAAAAAAAGATCGGTGGCGACTCCTTTTTTT
Found at i:22774834 original size:72 final size:74
Alignment explanation
Indices: 22774711--22774875 Score: 203
Period size: 72 Copynumber: 2.3 Consensus size: 74
22774701 CGCTAATTCT
* * * *
22774711 GAGGGATTTAGCGGC-ATTTTTATGAAAGCGCCGTAAAAAAATTCAACCCAACGACGCCATTTAC
1 GAGGGGTTTAGCGGCGTTTTTTATGAAAGCGCCGCAAAAAAACTCAACCCAACGACGCCATTTAC
22774775 TGAGCTTTC
66 TGAGCTTTC
* * * *
22774784 -AGGGGTTTAGCGGCGTTTTTTAT-CAAGCGCCGCAAAAAAACT-AAGTCCAACGACGCCGTTTT
1 GAGGGGTTTAGCGGCGTTTTTTATGAAAGCGCCGCAAAAAAACTCAA-CCCAACGACGCCATTTA
22774846 CTGAGCTTTC
65 CTGAGCTTTC
* *
22774856 GGGGGGTTTAGCGGAGTTTT
1 GAGGGGTTTAGCGGCGTTTT
22774876 CAACAATACG
Statistics
Matches: 79, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
71 2 0.03
72 53 0.67
73 24 0.30
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (74 bp):
GAGGGGTTTAGCGGCGTTTTTTATGAAAGCGCCGCAAAAAAACTCAACCCAACGACGCCATTTAC
TGAGCTTTC
Found at i:22774850 original size:186 final size:185
Alignment explanation
Indices: 22774622--22775376 Score: 595
Period size: 186 Copynumber: 4.1 Consensus size: 185
22774612 GGCGCTCTCA
* *
22774622 AAAGCGCCGCAAAAAATTAAGCCAAACGACGCCGTTTTCTGAGCTTTCGAGGGGTTTAGCGGCGT
1 AAAGCGCCGCAAAAAACTAAGCCAAACGACGCCGTTTTCTGAGCTTTCGAGGGGTTTAGCGGAGT
* * *
22774687 TTTCAATAA-AGCGCCGCTAATTCTGAGGGATTTAGCGGCATTTTTATGAAAGCGCCGTAAAAAA
66 TTTCAACAATA-CGCCGCTAATGCTG-GGGATTTAGCGGCATTTTTATGAAAGCGCCGCAAAAAA
* *
22774751 ATT-CAACCCAACGACGCCATTTACTGAGCTTTCAGGGGTTTAGCGGCGTTTTTTAT
129 ATTAAAACCCAACGACGCCATTTACTGAGCTTTCAGGGGTTTAGCGGCGTTTTTAAT
* *
22774807 CAAGCGCCGCAAAAAAACTAAGTCC-AACGACGCCGTTTTCTGAGCTTTCGGGGGGTTTAGCGGA
1 AAAGCGCCGC-AAAAAACTAAG-CCAAACGACGCCGTTTTCTGAGCTTTCGAGGGGTTTAGCGGA
*
22774871 GTTTTCAACAATACGCCGCTAATGCTGGGGATTTAGCGGCGTTTTTATGAAAGCGCCGCAAAAAA
64 GTTTTCAACAATACGCCGCTAATGCTGGGGATTTAGCGGCATTTTTATGAAAGCGCCGCAAAAAA
* * * *
22774936 ATTAAAACCCAACGACGCCGTTTTCTTAGCTTTCAGGGGTTTAGTGGCGTTTTTAAT
129 ATTAAAACCCAACGACGCCATTTACTGAGCTTTCAGGGGTTTAGCGGCGTTTTTAAT
* ** *** * * *** ****** * *
22774993 AAAGCGCCGC-TAATGCTAAGGGCTTTA-G-CGGCGTTTT-TGATCAAGCGCCA-CAAAAAAACT
1 AAAGCGCCGCAAAAAACTAA--GCCAAACGACGCCGTTTTCTGAGCTTTCG--AGGGGTTTAGCG
* ** * * *** * * * * **
22775053 AAG--CCCAACGACACCGTTTTCTGA-GCTTTCGGGGGGGTTTAGCGGCGTTTTCAACAATA-CG
62 GAGTTTTCAACAATA-CG-CCGCTAATGC--T---GGGGATTTAGCGGCATTTTTATGAA-AGCG
* * * * *
22775114 CCGCAAAAAAAATT-AAACCCAACGAC-CCGTTTTCTTAGCTTTCGGGGGTTTAGCGGTGTTTTT
119 CCGC-AAAAAAATTAAAACCCAACGACGCCATTTACTGAGCTTTCAGGGGTTTAGCGGCGTTTTT
22775177 AAT
183 AAT
* * * * * *
22775180 AAAGCGGCGCAAAAAAAACTAAGCCCAATGACGCCATTTTCTGAGCTTTCGGGGGGTTTAGCGGC
1 AAAGCGCCGC--AAAAAACTAAGCCAAACGACGCCGTTTTCTGAGCTTTCGAGGGGTTTAGCGGA
* ** * **
22775245 GTTTTCAATAATGTGCCGCTAATGCTGGGGCTTTAGCGGTGTTTTTATGAAAGCGCCGCAAAAAA
64 GTTTTCAACAATACGCCGCTAATGCTGGGGATTTAGCGGCATTTTTATGAAAGCGCCGCAAAAAA
* * * * * *
22775310 ATT-AAACCCAACGATGCCGTTTTCTGAGCTTTCGGGGAGTTTAGCGGTGTTTTCAAT
129 ATTAAAACCCAACGACGCCATTTACTGAGCTTTCAGGG-GTTTAGCGGCGTTTTTAAT
22775367 AAAGCGCCGC
1 AAAGCGCCGC
22775377 TAATGCTGAG
Statistics
Matches: 445, Mismatches: 94, Indels: 60
0.74 0.16 0.10
Matches are distributed among these distances:
182 6 0.01
183 10 0.02
184 21 0.05
185 72 0.16
186 174 0.39
187 76 0.17
188 42 0.09
189 12 0.03
190 19 0.04
191 9 0.02
192 4 0.01
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.27
Consensus pattern (185 bp):
AAAGCGCCGCAAAAAACTAAGCCAAACGACGCCGTTTTCTGAGCTTTCGAGGGGTTTAGCGGAGT
TTTCAACAATACGCCGCTAATGCTGGGGATTTAGCGGCATTTTTATGAAAGCGCCGCAAAAAAAT
TAAAACCCAACGACGCCATTTACTGAGCTTTCAGGGGTTTAGCGGCGTTTTTAAT
Found at i:22774913 original size:113 final size:113
Alignment explanation
Indices: 22774784--22775117 Score: 460
Period size: 113 Copynumber: 2.9 Consensus size: 113
22774774 CTGAGCTTTC
*
22774784 AGGGGTTTAGCGGCGTTTTTTATCAAGCGCCGCAAAAAAACTAAGTCCAACGACGCCGTTTTCTG
1 AGGGGTTTAGCGGCGTTTTTTATCAAGCGCCGCAAAAAAACTAAGCCCAACGACGCCGTTTTCTG
*
22774849 AGCTTTCGGGGGGTTTAGCGGAGTTTTCAACAATACGCCGCTAATGCT
66 AGCTTTCGGGGGGTTTAGCGGCGTTTTCAACAATACGCCGCTAATGCT
* * *
22774897 -GGGGATTTAGCGGCG-TTTTTATGAAAGCGCCGCAAAAAAATTAAAACCCAACGACGCCGTTTT
1 AGGGG-TTTAGCGGCGTTTTTTAT-CAAGCGCCGCAAAAAAACT-AAGCCCAACGACGCCGTTTT
* * * * *
22774960 CTTAGCTTTC-AGGGGTTTAGTGGCGTTTTTAATAA-AGCGCCGCTAATGCT
63 CTGAGCTTTCGGGGGGTTTAGCGGCGTTTTCAACAATA-CGCCGCTAATGCT
* * * *
22775010 AAGGGCTTTAGCGGCGTTTTTGATCAAGCGCCACAAAAAAACTAAGCCCAACGACACCGTTTTCT
1 -AGGGGTTTAGCGGCGTTTTTTATCAAGCGCCGCAAAAAAACTAAGCCCAACGACGCCGTTTTCT
22775075 GAGCTTTCGGGGGGGTTTAGCGGCGTTTTCAACAATACGCCGC
65 GAGCTTTC-GGGGGGTTTAGCGGCGTTTTCAACAATACGCCGC
22775118 AAAAAAAATT
Statistics
Matches: 189, Mismatches: 22, Indels: 18
0.83 0.10 0.08
Matches are distributed among these distances:
112 12 0.06
113 87 0.46
114 53 0.28
115 36 0.19
116 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (113 bp):
AGGGGTTTAGCGGCGTTTTTTATCAAGCGCCGCAAAAAAACTAAGCCCAACGACGCCGTTTTCTG
AGCTTTCGGGGGGTTTAGCGGCGTTTTCAACAATACGCCGCTAATGCT
Found at i:22775255 original size:74 final size:73
Alignment explanation
Indices: 22775016--22775255 Score: 299
Period size: 74 Copynumber: 3.3 Consensus size: 73
22775006 TGCTAAGGGC
** *
22775016 TTTAGCGGCGTTTTTGATCAAGC-GC-CACAAAAAAACTAAGCCCAACGACACCGTTTTCTGAGC
1 TTTAGCGGCGTTTTCAATAAAGCGGCGCA-AAAAAAACTAAGCCCAACGAC-CCGTTTTCTGAGC
22775079 TTTCGGGGGGG
64 TTTC-GGGGGG
* * * * *
22775090 TTTAGCGGCGTTTTCAACAATA-CGCCGCAAAAAAAATTAAACCCAACGACCCGTTTTCTTAGCT
1 TTTAGCGGCGTTTTCAATAA-AGCGGCGCAAAAAAAACTAAGCCCAACGACCCGTTTTCTGAGCT
22775154 TTC-GGGGG
65 TTCGGGGGG
* * * *
22775162 TTTAGCGGTGTTTTTAATAAAGCGGCGCAAAAAAAACTAAGCCCAATGACGCCATTTTCTGAGCT
1 TTTAGCGGCGTTTTCAATAAAGCGGCGCAAAAAAAACTAAGCCCAACGAC-CCGTTTTCTGAGCT
22775227 TTCGGGGGG
65 TTCGGGGGG
22775236 TTTAGCGGCGTTTTCAATAA
1 TTTAGCGGCGTTTTCAATAA
22775256 TGTGCCGCTA
Statistics
Matches: 141, Mismatches: 19, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
71 1 0.01
72 46 0.33
73 15 0.11
74 56 0.40
75 21 0.15
76 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (73 bp):
TTTAGCGGCGTTTTCAATAAAGCGGCGCAAAAAAAACTAAGCCCAACGACCCGTTTTCTGAGCTT
TCGGGGGG
Found at i:22775415 original size:374 final size:373
Alignment explanation
Indices: 22774745--22775479 Score: 1098
Period size: 374 Copynumber: 2.0 Consensus size: 373
22774735 AAAGCGCCGT
* * *
22774745 AAAAAAATTCAACCCAACGACGCCATTTACTGAGCTTTCAGGGGTTTAGCGGCGTTTTTTATCAA
1 AAAAAAATTAAACCCAACGACGCCATTTACTGAGCTTTCAGGGGTTTAGCGGCGTTTTTAATAAA
* *
22774810 GCGCCGCAAAAAAACTAAGTCCAACGACGCCGTTTTCTGAGCTTTCGGGGGGTTTAGCGGAGTTT
66 GCGCCGCAAAAAAACTAAGCCCAACGACGCCATTTTCTGAGCTTTCGGGGGGTTTAGCGGAGTTT
22774875 TCAACAATACGCCGCTAATGCTGGGGATTTAGCGGCGTTTTTATGAAAGCGCCGCAAAAAAATTA
131 TCAACAATACGCCGCTAATGCTGGGGATTTAGCGGCGTTTTTATGAAAGCGCCGCAAAAAAATTA
* * *
22774940 AAACCCAACGACGCCGTTTTCTTAGCTTTCAGGGGTTTAGTGGCGTTTTTAATAAAGCGCCGCTA
196 AAACCCAACGACGCCGTTTTCTGAGCTTTCAGGGGTTTAGCGGCGTTTTCAATAAAGCGCCGCTA
* * **
22775005 ATGCTAAGGGCTTTAGCGGCGTTTTTGATCAAGCGCCACAAAAAAA-CTAAGCCCAACGACACCG
261 ATGCTAAGGCCTTTAGCGGCGTTGTTGAGAAAGCGCCACAAAAAAATCTAAGCCCAACGACACCG
22775069 TTTTCTGAGCTTTCGGGGGGGTTTAGCGGCGTTTTCAACAATACGCCGCA
326 TTTTCTGAGCTTTC--GGGGGTTTAGCGGCGTTTTCAACAATACGCCGCA
* * * * *
22775119 AAAAAAATTAAACCCAACGAC-CCGTTTTCTTAGCTTTCGGGGGTTTAGCGGTGTTTTTAATAAA
1 AAAAAAATTAAACCCAACGACGCCATTTACTGAGCTTTCAGGGGTTTAGCGGCGTTTTTAATAAA
* * *
22775183 GCGGCGCAAAAAAAACTAAGCCCAATGACGCCATTTTCTGAGCTTTCGGGGGGTTTAGCGGCGTT
66 GCGCCGC-AAAAAAACTAAGCCCAACGACGCCATTTTCTGAGCTTTCGGGGGGTTTAGCGGAGTT
* ** * *
22775248 TTCAATAATGTGCCGCTAATGCTGGGGCTTTAGCGGTGTTTTTATGAAAGCGCCGCAAAAAAATT
130 TTCAACAATACGCCGCTAATGCTGGGGATTTAGCGGCGTTTTTATGAAAGCGCCGCAAAAAAATT
* * *
22775313 -AAACCCAACGATGCCGTTTTCTGAGCTTTCGGGGAGTTTAGCGGTGTTTTCAATAAAGCGCCGC
195 AAAACCCAACGACGCCGTTTTCTGAGCTTTCAGGG-GTTTAGCGGCGTTTTCAATAAAGCGCCGC
* * * **
22775377 TAATGCTGAGGCCTTTAGCGGCGTTGTTGAGAAAGCGCCGCAAAAAAATTTAAGCCCAACGATGC
259 TAATGCTAAGGCCTTTAGCGGCGTTGTTGAGAAAGCGCCACAAAAAAATCTAAGCCCAACGACAC
* *
22775442 TGTTTTCTGAGCTTTCGGGGGTTTAGCGGTGTTTTCAA
324 CGTTTTCTGAGCTTTCGGGGGTTTAGCGGCGTTTTCAA
22775480 TAAAGCGCCG
Statistics
Matches: 323, Mismatches: 35, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
373 94 0.29
374 201 0.62
375 28 0.09
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (373 bp):
AAAAAAATTAAACCCAACGACGCCATTTACTGAGCTTTCAGGGGTTTAGCGGCGTTTTTAATAAA
GCGCCGCAAAAAAACTAAGCCCAACGACGCCATTTTCTGAGCTTTCGGGGGGTTTAGCGGAGTTT
TCAACAATACGCCGCTAATGCTGGGGATTTAGCGGCGTTTTTATGAAAGCGCCGCAAAAAAATTA
AAACCCAACGACGCCGTTTTCTGAGCTTTCAGGGGTTTAGCGGCGTTTTCAATAAAGCGCCGCTA
ATGCTAAGGCCTTTAGCGGCGTTGTTGAGAAAGCGCCACAAAAAAATCTAAGCCCAACGACACCG
TTTTCTGAGCTTTCGGGGGTTTAGCGGCGTTTTCAACAATACGCCGCA
Found at i:22775469 original size:114 final size:114
Alignment explanation
Indices: 22775162--22775611 Score: 681
Period size: 114 Copynumber: 3.9 Consensus size: 114
22775152 CTTTCGGGGG
* * * * * ** * * *
22775162 TTTAGCGGTGTTTTTAATAAAGCGGCGCAAAAAAAACTAAGCCCAATGACGCCATTTTCTGAGCT
1 TTTAGCGGCGTTGTTGAGAAAGCGCCGCAAAAAAATTTAAGCCCAACGATGCCGTTTTCTGAGCT
* * * *
22775227 TTCGGGGGGTTTAGCGGCGTTTTCAATAATGTGCCGCTAATGCTG-GGGC
66 TTC-GGGGGTTTAGCGGTGTTTTCAATAAAGCGCCGCTAATGCTGAGGCC
* * *
22775276 TTTAGCGGTGTT-TTTATGAAAGCGCCGCAAAAAAA-TTAAACCCAACGATGCCGTTTTCTGAGC
1 TTTAGCGGCGTTGTTGA-GAAAGCGCCGCAAAAAAATTTAAGCCCAACGATGCCGTTTTCTGAGC
22775339 TTTCGGGGAGTTTAGCGGTGTTTTCAATAAAGCGCCGCTAATGCTGAGGCC
65 TTTCGGGG-GTTTAGCGGTGTTTTCAATAAAGCGCCGCTAATGCTGAGGCC
*
22775390 TTTAGCGGCGTTGTTGAGAAAGCGCCGCAAAAAAATTTAAGCCCAACGATGCTGTTTTCTGAGCT
1 TTTAGCGGCGTTGTTGAGAAAGCGCCGCAAAAAAATTTAAGCCCAACGATGCCGTTTTCTGAGCT
22775455 TTCGGGGGTTTAGCGGTGTTTTCAATAAAGCGCCGCTAATGCTGAGGCC
66 TTCGGGGGTTTAGCGGTGTTTTCAATAAAGCGCCGCTAATGCTGAGGCC
*
22775504 TTTAGCGGCGTTGTTGAGAAAGCGCCGCAAAAAAATTTAAGCCCAACGATGCTGTTTTCTGAGCT
1 TTTAGCGGCGTTGTTGAGAAAGCGCCGCAAAAAAATTTAAGCCCAACGATGCCGTTTTCTGAGCT
22775569 TTCGGGGGTTTAGCGGTGTTTTCAATAAAGCGCCGCTAATGCT
66 TTCGGGGGTTTAGCGGTGTTTTCAATAAAGCGCCGCTAATGCT
22775612 CAGGGATTTA
Statistics
Matches: 315, Mismatches: 16, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
112 4 0.01
113 64 0.20
114 210 0.67
115 37 0.12
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (114 bp):
TTTAGCGGCGTTGTTGAGAAAGCGCCGCAAAAAAATTTAAGCCCAACGATGCCGTTTTCTGAGCT
TTCGGGGGTTTAGCGGTGTTTTCAATAAAGCGCCGCTAATGCTGAGGCC
Found at i:22775855 original size:21 final size:20
Alignment explanation
Indices: 22775829--22775895 Score: 77
Period size: 21 Copynumber: 3.4 Consensus size: 20
22775819 GGTTTTGTGG
22775829 TTTAAGGGTTAGGTGTTATGC
1 TTTAAGGGTTAGG-GTTATGC
* *
22775850 TTTAAGGGTTAGGG---GGA
1 TTTAAGGGTTAGGGTTATGC
22775867 TTTAAGGGTTAGGGGTTATGC
1 TTTAAGGGTTA-GGGTTATGC
22775888 TTTAAGGG
1 TTTAAGGG
22775896 GTTATGGGGA
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
17 12 0.32
18 3 0.08
20 1 0.03
21 22 0.58
ACGTcount: A:0.21, C:0.03, G:0.39, T:0.37
Consensus pattern (20 bp):
TTTAAGGGTTAGGGTTATGC
Found at i:22775875 original size:38 final size:39
Alignment explanation
Indices: 22775829--22775906 Score: 131
Period size: 38 Copynumber: 2.0 Consensus size: 39
22775819 GGTTTTGTGG
*
22775829 TTTAAGGGTTAGGTGTTATGCTTTAA-GGGTTAGGGGGA
1 TTTAAGGGTTAGGGGTTATGCTTTAAGGGGTTAGGGGGA
*
22775867 TTTAAGGGTTAGGGGTTATGCTTTAAGGGGTTATGGGGA
1 TTTAAGGGTTAGGGGTTATGCTTTAAGGGGTTAGGGGGA
22775906 T
1 T
22775907 AGATTTAGGG
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
38 25 0.68
39 12 0.32
ACGTcount: A:0.21, C:0.03, G:0.40, T:0.37
Consensus pattern (39 bp):
TTTAAGGGTTAGGGGTTATGCTTTAAGGGGTTAGGGGGA
Found at i:22775913 original size:22 final size:21
Alignment explanation
Indices: 22775829--22775918 Score: 75
Period size: 21 Copynumber: 4.5 Consensus size: 21
22775819 GGTTTTGTGG
* * *
22775829 TTTAAGGGTTAGGTGTTATGC
1 TTTAAGGGTTAGGGGATATGA
22775850 TTTAAGGGTTAGGGG----GA
1 TTTAAGGGTTAGGGGATATGA
* *
22775867 TTTAAGGGTTAGGGGTTATGC
1 TTTAAGGGTTAGGGGATATGA
22775888 TTTAAGGGGTTATGGGGATA-GA
1 TTTAA-GGGTTA-GGGGATATGA
22775910 TTT-AGGGTT
1 TTTAAGGGTT
22775919 TGGTTTTTAT
Statistics
Matches: 58, Mismatches: 5, Indels: 13
0.76 0.07 0.17
Matches are distributed among these distances:
17 16 0.28
20 5 0.09
21 21 0.36
22 10 0.17
23 6 0.10
ACGTcount: A:0.21, C:0.02, G:0.39, T:0.38
Consensus pattern (21 bp):
TTTAAGGGTTAGGGGATATGA
Found at i:22775968 original size:35 final size:35
Alignment explanation
Indices: 22775924--22775999 Score: 107
Period size: 35 Copynumber: 2.2 Consensus size: 35
22775914 GGGTTTGGTT
* * * * *
22775924 TTTATGGTTTAGGGTTTAAGGGTTATATTTTAGGG
1 TTTATGGTTTAAGATTTAAGAGTTATAATTTAAGG
22775959 TTTATGGTTTAAGATTTAAGAGTTATAATTTAAGG
1 TTTATGGTTTAAGATTTAAGAGTTATAATTTAAGG
22775994 TTTATG
1 TTTATG
22776000 AATTATGGGT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.26, C:0.00, G:0.25, T:0.49
Consensus pattern (35 bp):
TTTATGGTTTAAGATTTAAGAGTTATAATTTAAGG
Found at i:22775984 original size:21 final size:21
Alignment explanation
Indices: 22775960--22776012 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
22775950 ATTTTAGGGT
*
22775960 TTATGGTTTAAGATTTAAGAG
1 TTATGGTTTAAGATTTAAGAA
** * *
22775981 TTATAATTTAAGGTTTATGAA
1 TTATGGTTTAAGATTTAAGAA
22776002 TTATGGGTTTA
1 TTAT-GGTTTA
22776013 GTGATTATGT
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.32, C:0.00, G:0.21, T:0.47
Consensus pattern (21 bp):
TTATGGTTTAAGATTTAAGAA
Found at i:22776525 original size:11 final size:11
Alignment explanation
Indices: 22776509--22776533 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
22776499 GGAATAGAAC
22776509 AAATTTAATTT
1 AAATTTAATTT
22776520 AAATTTAATTT
1 AAATTTAATTT
22776531 AAA
1 AAA
22776534 ACTTTCAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
AAATTTAATTT
Found at i:22777704 original size:16 final size:16
Alignment explanation
Indices: 22777667--22777698 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
22777657 GAAATGCAGT
*
22777667 AGTTTTCACATATTTC
1 AGTTTTCACATAATTC
22777683 AGTTTTCACATAATTC
1 AGTTTTCACATAATTC
22777699 TTTTTTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.19, G:0.06, T:0.47
Consensus pattern (16 bp):
AGTTTTCACATAATTC
Found at i:22779499 original size:20 final size:20
Alignment explanation
Indices: 22779466--22779547 Score: 82
Period size: 20 Copynumber: 4.2 Consensus size: 20
22779456 AGGACACTTC
*
22779466 ATAACTTATATAATATTAAG
1 ATAAATTATATAATATTAAG
* *
22779486 ATAAAATT-TCT-A-ATT-AC
1 AT-AAATTATATAATATTAAG
*
22779503 ATAACTTATATAATATTAAG
1 ATAAATTATATAATATTAAG
*
22779523 ATAAGTTATATAATATTAAG
1 ATAAATTATATAATATTAAG
22779543 ATAAA
1 ATAAA
22779548 ATTTCGTATT
Statistics
Matches: 49, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
16 4 0.08
17 5 0.10
18 4 0.08
19 4 0.08
20 28 0.57
21 4 0.08
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.39
Consensus pattern (20 bp):
ATAAATTATATAATATTAAG
Found at i:22781252 original size:21 final size:21
Alignment explanation
Indices: 22781226--22781294 Score: 120
Period size: 21 Copynumber: 3.3 Consensus size: 21
22781216 TTACTACTTA
* *
22781226 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGAG
22781247 AAGCAGAGGCTGCAGCGAGAG
1 AAGCAGAGGCTGCAGCGAGAG
22781268 AAGCAGAGGCTGCAGCGAGAG
1 AAGCAGAGGCTGCAGCGAGAG
22781289 AAGCAG
1 AAGCAG
22781295 CGAGAGAAGC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 46 1.00
ACGTcount: A:0.33, C:0.19, G:0.45, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGAG
Found at i:22781296 original size:12 final size:12
Alignment explanation
Indices: 22781258--22781336 Score: 71
Period size: 12 Copynumber: 7.1 Consensus size: 12
22781248 AGCAGAGGCT
22781258 GCAGCGAGAGAA
1 GCAGCGAGAGAA
**
22781270 GCA--GAG-GCT
1 GCAGCGAGAGAA
22781279 GCAGCGAGAGAA
1 GCAGCGAGAGAA
22781291 GCAGCGAGAGAA
1 GCAGCGAGAGAA
**
22781303 GCA--GA-AGCT
1 GCAGCGAGAGAA
*
22781312 GCAGCTAGAGAA
1 GCAGCGAGAGAA
22781324 GCAGCGAGAGAA
1 GCAGCGAGAGAA
22781336 G
1 G
22781337 TAGAGGTTCA
Statistics
Matches: 51, Mismatches: 10, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
9 9 0.18
10 5 0.10
11 4 0.08
12 33 0.65
ACGTcount: A:0.38, C:0.18, G:0.41, T:0.04
Consensus pattern (12 bp):
GCAGCGAGAGAA
Found at i:22781300 original size:33 final size:33
Alignment explanation
Indices: 22781258--22781342 Score: 143
Period size: 33 Copynumber: 2.6 Consensus size: 33
22781248 AGCAGAGGCT
22781258 GCAGCGAGAGAAGCAGAGGCTGCAGCGAGAGAA
1 GCAGCGAGAGAAGCAGAGGCTGCAGCGAGAGAA
* *
22781291 GCAGCGAGAGAAGCAGAAGCTGCAGCTAGAGAA
1 GCAGCGAGAGAAGCAGAGGCTGCAGCGAGAGAA
*
22781324 GCAGCGAGAGAAGTAGAGG
1 GCAGCGAGAGAAGCAGAGG
22781343 TTCAAAAGAA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 48 1.00
ACGTcount: A:0.38, C:0.16, G:0.41, T:0.05
Consensus pattern (33 bp):
GCAGCGAGAGAAGCAGAGGCTGCAGCGAGAGAA
Found at i:22781797 original size:42 final size:42
Alignment explanation
Indices: 22781747--22781868 Score: 190
Period size: 42 Copynumber: 2.9 Consensus size: 42
22781737 TTTGTGAAAC
* * * *
22781747 AAGCGCCGCGAAAGAACGTGATCTTTAGCGGCATTTTTATTT
1 AAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTTTATTT
**
22781789 AAGCGCCGCTAAAGAACATGGGCTTTAGCGGCGTTTTTATTT
1 AAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTTTATTT
22781831 AAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTTT
1 AAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTTT
22781869 TTCTGTAAAC
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 73 1.00
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (42 bp):
AAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTTTATTT
Found at i:22789350 original size:44 final size:44
Alignment explanation
Indices: 22789283--22789816 Score: 149
Period size: 44 Copynumber: 11.6 Consensus size: 44
22789273 TCATACCAAC
*
22789283 CCACTGCAACTTCAGAGG-TATAAGAATTGTAGCTTCAACTTGCT
1 CCACTGCAACTTCAG-GGAGATAAGAATTGTAGCTTCAACTTGCT
* * * *
22789327 CCACTGCAACTTCAGGGAGATAAGATTTGCTATCGTAAGTTCAA--TCCAA
1 CCACTGCAACTTCAGGGAGATAAGAATTG-TA--G---CTTCAACTTGC-T
* * *
22789376 CCTACTGCAACTTCAGGG-GTATAGGAATTGTAACTTCATCTTGCT
1 CC-ACTGCAACTTCAGGGAG-ATAAGAATTGTAGCTTCAACTTGCT
* * * ***
22789421 CCACTGTAACTTCAGGGAGATAAGATTTACTATGGTAGATTTAATCCAAC-
1 CCACTGCAACTTCAGGGAGATAAGA---A-T-T-GTAGCTTCAA-CTTGCT
* * * *
22789471 CCACTGCAACTTTAGGG-GTATAGGATTTGTAGCTTCATCTTGCT
1 CCACTGCAACTTCAGGGAG-ATAAGAATTGTAGCTTCAACTTGCT
* * * * * **
22789515 CCACTGCAACTTTAGGGAGATAAGATTCACCATCGTTGTTTCATTCTAAC-
1 CCACTGCAACTTCAGGGAGATAAG----A--ATTGTAGCTTCA-ACTTGCT
* * * *
22789565 CCACTGCAACTTTAGGG-GTATAGGAATTGTATCTTCATCTTGCT
1 CCACTGCAACTTCAGGGAG-ATAAGAATTGTAGCTTCAACTTGCT
* * **
22789609 CCACTGCAACTTCATGGAGATAAGATTCTCTATTTTAG-TTTTA-TTCCGAC-
1 CCACTGCAACTTCAGGGAGATAAGA------ATTGTAGCTTCAACTT--G-CT
* * * * * *
22789659 CCACTGCAACTTCAATGG-TATAGGAATTGGTATCTTCAATTTGAT
1 CCACTGCAACTTC-AGGGAGATAAGAATT-GTAGCTTCAACTTGCT
* * * * * * *
22789704 CCATTACAACTTCAAGGATATAGGATTTGTAGCTTCAA-TCTGAT
1 CCACTGCAACTTCAGGGAGATAAGAATTGTAGCTTCAACT-TGCT
* * * * * *
22789748 CCACTGTAACTTTAGGGATATATGATTTGTAGCTTCATCTTGCT
1 CCACTGCAACTTCAGGGAGATAAGAATTGTAGCTTCAACTTGCT
* *
22789792 CTATTGCAACTTCAGGGAGATAAGA
1 CCACTGCAACTTCAGGGAGATAAGA
22789817 TTCACTATGG
Statistics
Matches: 361, Mismatches: 79, Indels: 100
0.67 0.15 0.19
Matches are distributed among these distances:
43 9 0.02
44 175 0.48
45 32 0.09
46 7 0.02
47 4 0.01
48 6 0.02
49 10 0.03
50 107 0.30
51 11 0.03
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.33
Consensus pattern (44 bp):
CCACTGCAACTTCAGGGAGATAAGAATTGTAGCTTCAACTTGCT
Found at i:22789383 original size:94 final size:93
Alignment explanation
Indices: 22789220--22789863 Score: 606
Period size: 94 Copynumber: 6.9 Consensus size: 93
22789210 TACTATCACG
* * * * ** * *
22789220 GCTTCATTTTGCTCCATTACAACTTCAAGGAGATAAGATTTGGTGTTGTAGCTTC-ATACCAACC
1 GCTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTTACT-ATGTAGTTTCAAT-CCAACC
* * *
22789284 CACTGCAACTTCAGAGGTATAAGAATTGTA
64 CACTGCAACTTTAGGGGTATAGGAATTGTA
* *
22789314 GCTTCAACTTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCGTAAG-TTCAATCCAACC
1 GCTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTTACTAT-GT-AGTTTCAATCCAACC
* *
22789378 TACTGCAACTTCAGGGGTATAGGAATTGTA
64 CACTGCAACTTTAGGGGTATAGGAATTGTA
* *
22789408 ACTTCATCTTGCTCCACTGTAACTTCAGGGAGATAAGATTTACTATGGTAGATTT-AATCCAACC
1 GCTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTTACTAT-GTAG-TTTCAATCCAACC
*
22789472 CACTGCAACTTTAGGGGTATAGGATTTGTA
64 CACTGCAACTTTAGGGGTATAGGAATTGTA
* * * * * *
22789502 GCTTCATCTTGCTCCACTGCAACTTTAGGGAGATAAGATTCACCATCGTTGTTTCATTCTAACCC
1 GCTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTTACTAT-GTAGTTTCAATCCAACCC
22789567 ACTGCAACTTTAGGGGTATAGGAATTGTA
65 ACTGCAACTTTAGGGGTATAGGAATTGTA
* * * * * *
22789596 TCTTCATCTTGCTCCACTGCAACTTCATGGAGATAAGATTCT-CTATTTTAGTTTTATTCCGACC
1 GCTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGATT-TACTA-TGTAGTTTCAATCCAACC
* **
22789660 CACTGCAACTTCAATGGTATAGGAATTGGTA
64 CACTGCAACTTTAGGGGTATAGGAATT-GTA
* * * * * * * * ** *
22789691 TCTTCAAT-TTGATCCATTACAACTTCAAGGATATAGGA--T--T-TGTAGCTTCAATCTGATCC
1 GCTTC-ATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTTACTATGTAGTTTCAATCCAACCC
* * * *
22789750 ACTGTAACTTTAGGGATATATGATTTGTA
65 ACTGCAACTTTAGGGGTATAGGAATTGTA
* * * ** **
22789779 GCTTCATCTTGCTCTATTGCAACTTCAGGGAGATAAGATTCACTATGGTAAATTCAATCTGACCC
1 GCTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTTACTAT-GTAGTTTCAATCCAACCC
*
22789844 ACTGTAACTTTAGGGGTATA
65 ACTGCAACTTTAGGGGTATA
22789864 AGATTTGTGG
Statistics
Matches: 461, Mismatches: 72, Indels: 34
0.81 0.13 0.06
Matches are distributed among these distances:
87 2 0.00
88 31 0.07
89 32 0.07
91 1 0.00
92 2 0.00
93 7 0.02
94 345 0.75
95 39 0.08
96 2 0.00
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (93 bp):
GCTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTTACTATGTAGTTTCAATCCAACCCA
CTGCAACTTTAGGGGTATAGGAATTGTA
Found at i:22805432 original size:25 final size:25
Alignment explanation
Indices: 22805362--22805455 Score: 100
Period size: 25 Copynumber: 3.6 Consensus size: 25
22805352 TGGGTTAATT
* *
22805362 TTAAAATAAGTAATATGTAGAA-TAAC
1 TTAAAATAA-TAATATATA-AAGCAAC
22805388 TTAAAATAAAATAATATATAAAGCAAC
1 TTAAAAT--AATAATATATAAAGCAAC
* *
22805415 TTAAAATAATAATCTATAAAGCAAG
1 TTAAAATAATAATATATAAAGCAAC
*
22805440 TTAAAATAATCATATA
1 TTAAAATAATAATATA
22805456 CGAATTTAAT
Statistics
Matches: 59, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
25 30 0.51
26 9 0.15
27 18 0.31
28 2 0.03
ACGTcount: A:0.57, C:0.06, G:0.06, T:0.30
Consensus pattern (25 bp):
TTAAAATAATAATATATAAAGCAAC
Found at i:22822808 original size:138 final size:139
Alignment explanation
Indices: 22822587--22823232 Score: 547
Period size: 138 Copynumber: 4.7 Consensus size: 139
22822577 TGGAGTTGTG
* * * *
22822587 AGCTTAATCCTACGAGCTCTTAGAATATCAACTAGAAGCATAGGTCCGCTAGCTATTTTTGGAGG
1 AGCTTAACCCTACGAGCTCTTAGAATATCAACTGGGAGCATAGGTCCGCTAACTATTTTTGGAGG
* * * *
22822652 TTGC-GATCATAAATCGGTAAACCTTTATAACATCAATTGGGAACGTAGGTCCACTAGCTGTGTT
66 TTGCAGATCATAAACCGATAAACCTTTATAACATCAATTGGGAACGTAGGTCCGCTAGCTATGTT
*
22822716 GGA-CCAGC
131 GGAGCTAGC
* * *
22822724 AAGCTTAACCCTACGAGCTCGTAGAATATCAACTGGGAGCATAGGTCTGCTAGCTATTTTTGGAG
1 -AGCTTAACCCTACGAGCTCTTAGAATATCAACTGGGAGCATAGGTCCGCTAACTATTTTTGGAG
* * * * * *
22822789 GTTACAG-TCATAAACCGGTAAACCTTTATAACATCAATTGGGAATGTAGTTCTGCTAGCTATAT
65 GTTGCAGATCATAAACCGATAAACCTTTATAACATCAATTGGGAACGTAGGTCCGCTAGCTATGT
22822853 TGGAGCTA-C
130 TGGAGCTAGC
*** ** * **** * * *
22822862 GAGCTTAAATTTGTGAACTCTTAGAATATTTGTTGGGAGCGTAGGTCCGATAACTATTTTTAGAG
1 -AGCTTAACCCTACGAGCTCTTAGAATATCAACTGGGAGCATAGGTCCGCTAACTATTTTTGGAG
* * * * ** * * * *
22822927 GTTG-TGATCATAAACCGACAAACTTTTATAACATCAACTGGGAACGTATATTCTCTAGTTGTGT
65 GTTGCAGATCATAAACCGATAAACCTTTATAACATCAATTGGGAACGTAGGTCCGCTAGCTATGT
22822991 TGGAGCTATG-
130 TGGAGCTA-GC
* * * * * *
22823001 AGCTTAACCCTGCGGGCTCTTAGAATATTAGCTGGGAGCGTAGGTTCGCTAACTATTTTTGGAGG
1 AGCTTAACCCTACGAGCTCTTAGAATATCAACTGGGAGCATAGGTCCGCTAACTATTTTTGGAGG
* * * * *
22823066 TTGCA-ATCATAAACCGAAAAACCTTTATAACATCAGTTAGAAATGTAGGTCCGCTAGCTATGTT
66 TTGCAGATCATAAACCGATAAACCTTTATAACATCAATTGGGAACGTAGGTCCGCTAGCTATGTT
* *
22823130 GAAGCT-GTG
131 GGAGCTAG-C
* ** * * * ** * * * * *
22823139 AGCTTAAACCTGTGAACTTTTAGAATATTAGTTAGAAGCGTAGGTCCG-GAAGCCATTTTTGGAG
1 AGCTTAACCCTACGAGCTCTTAGAATATCAACTGGGAGCATAGGTCCGCTAA-CTATTTTTGGAG
* * *
22823203 GTTGC-GATCATAAACTGACAAACCATTATA
65 GTTGCAGATCATAAACCGATAAACCTTTATA
22823233 TAATACAAAG
Statistics
Matches: 412, Mismatches: 86, Indels: 20
0.80 0.17 0.04
Matches are distributed among these distances:
136 1 0.00
137 3 0.01
138 405 0.98
139 3 0.01
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (139 bp):
AGCTTAACCCTACGAGCTCTTAGAATATCAACTGGGAGCATAGGTCCGCTAACTATTTTTGGAGG
TTGCAGATCATAAACCGATAAACCTTTATAACATCAATTGGGAACGTAGGTCCGCTAGCTATGTT
GGAGCTAGC
Found at i:22823079 original size:276 final size:275
Alignment explanation
Indices: 22822603--22823232 Score: 762
Period size: 276 Copynumber: 2.3 Consensus size: 275
22822593 ATCCTACGAG
* ** * * *
22822603 CTCTTAGAATATCAACTAGAAGCATAGGTCCGCTAGCTATTTTTGGAGGTTGCGATCATAAATCG
1 CTCTTAGAATATTAGTTAGAAGCGTAGGTCCGATAGCTATTTTTGGAGGTTGCGATCATAAACCG
** * *
22822668 GTAAACCTTTATAACATCAATTGGGAACGTAGGTCCACTAGCTGTGTTGGACCAGCAAGCTTAAC
66 ACAAACCTTTATAACATCAACTGGGAACGTAGATCCACTAGCTGTGTTGGACCAG-AAGCTTAAC
* *
22822733 CCTACGAGCTCGTAGAATATCAACTGGGAGCATAGGTCTGCTAGCTATTTTTGGAGGTTACAGTC
130 CCTACGAGCTCGTAGAATATCAACTGGGAGCATAGGTCTGCTAACTATTTTTGGAGGTTACAATC
** * * * * *
22822798 ATAAACCGGTAAACCTTTATAACATCAATTGGGAATGTAGTTCTGCTAGCTATATTGGAGCTACG
195 ATAAACCGAAAAACCTTTATAACATCAATTAGAAATGTAGGTCCGCTAGCTATATTGAAGCTACG
**
22822863 AGCTTAAATTTGTGAA
260 AGCTTAAACCTGTGAA
* * * * * *
22822879 CTCTTAGAATATTTGTTGGGAGCGTAGGTCCGATAACTATTTTTAGAGGTTGTGATCATAAACCG
1 CTCTTAGAATATTAGTTAGAAGCGTAGGTCCGATAGCTATTTTTGGAGGTTGCGATCATAAACCG
* * * * * *
22822944 ACAAACTTTTATAACATCAACTGGGAACGTATATTCTCTAGTTGTGTTGGAGCTATG-AGCTTAA
66 ACAAACCTTTATAACATCAACTGGGAACGTAGATCCACTAGCTGTGTTGGA-CCA-GAAGCTTAA
* * * * * * *
22823008 CCCTGCGGGCTCTTAGAATATTAGCTGGGAGCGTAGGT-TCGCTAACTATTTTTGGAGGTTGCAA
129 CCCTACGAGCTCGTAGAATATCAACTGGGAGCATAGGTCT-GCTAACTATTTTTGGAGGTTACAA
* * *
22823072 TCATAAACCGAAAAACCTTTATAACATCAGTTAGAAATGTAGGTCCGCTAGCTATGTTGAAGCTG
193 TCATAAACCGAAAAACCTTTATAACATCAATTAGAAATGTAGGTCCGCTAGCTATATTGAAGCTA
*
22823137 TGAGCTTAAACCTGTGAA
258 CGAGCTTAAACCTGTGAA
* * *
22823155 CTTTTAGAATATTAGTTAGAAGCGTAGGTCCGGA-AGCCATTTTTGGAGGTTGCGATCATAAACT
1 CTCTTAGAATATTAGTTAGAAGCGTAGGTCC-GATAGCTATTTTTGGAGGTTGCGATCATAAACC
*
22823219 GACAAACCATTATA
65 GACAAACCTTTATA
22823233 TAATACAAAG
Statistics
Matches: 295, Mismatches: 55, Indels: 8
0.82 0.15 0.02
Matches are distributed among these distances:
275 1 0.00
276 289 0.98
277 4 0.01
278 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (275 bp):
CTCTTAGAATATTAGTTAGAAGCGTAGGTCCGATAGCTATTTTTGGAGGTTGCGATCATAAACCG
ACAAACCTTTATAACATCAACTGGGAACGTAGATCCACTAGCTGTGTTGGACCAGAAGCTTAACC
CTACGAGCTCGTAGAATATCAACTGGGAGCATAGGTCTGCTAACTATTTTTGGAGGTTACAATCA
TAAACCGAAAAACCTTTATAACATCAATTAGAAATGTAGGTCCGCTAGCTATATTGAAGCTACGA
GCTTAAACCTGTGAA
Found at i:22823341 original size:20 final size:20
Alignment explanation
Indices: 22823312--22823350 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
22823302 TTTTGACGCG
* *
22823312 GCGGGTATTCTATGTTCGTA
1 GCGGGCATTCCATGTTCGTA
22823332 GCGGGCATTCCATGTTCGT
1 GCGGGCATTCCATGTTCGT
22823351 GGCAAAACTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.13, C:0.21, G:0.31, T:0.36
Consensus pattern (20 bp):
GCGGGCATTCCATGTTCGTA
Found at i:22830403 original size:20 final size:21
Alignment explanation
Indices: 22830369--22830407 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
22830359 AAGAAAGAAA
22830369 AAGAAAAAAAGAAATATTTAT
1 AAGAAAAAAAGAAATATTTAT
*
22830390 AAGAGAAAAA-AAATATTT
1 AAGAAAAAAAGAAATATTT
22830408 TTTTCTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.67, C:0.00, G:0.10, T:0.23
Consensus pattern (21 bp):
AAGAAAAAAAGAAATATTTAT
Found at i:22830868 original size:5 final size:5
Alignment explanation
Indices: 22830858--22830890 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
22830848 GATTTTACAA
22830858 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAA
22830891 CAAATATTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:22832035 original size:22 final size:22
Alignment explanation
Indices: 22832007--22832049 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
22831997 CGTAAAGGTG
22832007 TTGCGCTTGTGATGACACCACC
1 TTGCGCTTGTGATGACACCACC
22832029 TTGCGCTTGTGATGACACCAC
1 TTGCGCTTGTGATGACACCAC
22832050 TGGGCACAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.19, C:0.30, G:0.23, T:0.28
Consensus pattern (22 bp):
TTGCGCTTGTGATGACACCACC
Found at i:22836672 original size:16 final size:16
Alignment explanation
Indices: 22836651--22836702 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
22836641 TTTGGTTCGC
22836651 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
22836667 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
22836683 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
22836699 TGTA
1 TGTA
22836703 ATAGCAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.29, C:0.00, G:0.37, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:22836749 original size:45 final size:44
Alignment explanation
Indices: 22836683--22836777 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
22836673 GGATTAGAGG
* *
22836683 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
22836728 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
22836772 TGTAAT
1 TGTAAT
22836778 TGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:22836960 original size:18 final size:17
Alignment explanation
Indices: 22836939--22836973 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
22836929 TTATTATTTA
*
22836939 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
22836957 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
22836974 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:22836967 original size:28 final size:27
Alignment explanation
Indices: 22836897--22836969 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
22836887 TTTATTATCA
*
22836897 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
22836925 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
22836952 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
22836970 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:22837064 original size:147 final size:149
Alignment explanation
Indices: 22836858--22837132 Score: 509
Period size: 147 Copynumber: 1.9 Consensus size: 149
22836848 ATGATTATTG
*
22836858 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
*
22836923 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
66 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
22836988 AGAAATTTGTTTTGGTAAA
131 AGAAATTTGTTTTGGTAAA
*
22837007 TTATT-TTATTTAAATTTTAATAAGATTA-TTAATATCAATAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
22837070 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
22837133 ATAGTCTTAT
Statistics
Matches: 123, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
147 95 0.77
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (149 bp):
TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
AGAAATTTGTTTTGGTAAA
Found at i:22837107 original size:18 final size:17
Alignment explanation
Indices: 22837086--22837120 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
22837076 TTATTATTAA
*
22837086 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
22837104 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
22837121 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:22838564 original size:20 final size:19
Alignment explanation
Indices: 22838505--22838551 Score: 85
Period size: 19 Copynumber: 2.4 Consensus size: 19
22838495 CAACTACACA
22838505 AATTCACAATGTAACCTACT
1 AATT-ACAATGTAACCTACT
22838525 AATTACAATGTAACCTACT
1 AATTACAATGTAACCTACT
22838544 AATTACAA
1 AATTACAA
22838552 CTTTGACCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 23 0.85
20 4 0.15
ACGTcount: A:0.45, C:0.21, G:0.04, T:0.30
Consensus pattern (19 bp):
AATTACAATGTAACCTACT
Found at i:22839269 original size:14 final size:14
Alignment explanation
Indices: 22839244--22839278 Score: 61
Period size: 14 Copynumber: 2.4 Consensus size: 14
22839234 AAGAAGAAGC
22839244 AGAAATATGGAGAAA
1 AGAAA-ATGGAGAAA
22839259 AGAAAATGGAGAAA
1 AGAAAATGGAGAAA
22839273 AGAAAA
1 AGAAAA
22839279 GAAATGTGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 15 0.75
15 5 0.25
ACGTcount: A:0.66, C:0.00, G:0.26, T:0.09
Consensus pattern (14 bp):
AGAAAATGGAGAAA
Found at i:22839276 original size:19 final size:18
Alignment explanation
Indices: 22839254--22839298 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
22839244 AGAAATATGG
22839254 AGAAAAGAAAATG-GAGAAA
1 AGAAAAGAAAATGTGAG--A
22839273 AGAAAAG-AAATGTGAGA
1 AGAAAAGAAAATGTGAGA
22839290 AGAAAAGAA
1 AGAAAAGAA
22839299 GCGTACCGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 8 0.33
18 6 0.25
19 10 0.42
ACGTcount: A:0.67, C:0.00, G:0.27, T:0.07
Consensus pattern (18 bp):
AGAAAAGAAAATGTGAGA
Found at i:22840893 original size:27 final size:28
Alignment explanation
Indices: 22840863--22840941 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 28
22840853 ATAAATATAT
* * *
22840863 ATTTTAAAAAATATAAATATGTTAGAA-
1 ATTTTAAAAAATATAAAAATATTAAAAG
*
22840890 ATTTTAAAAAATAAAAAAATATTAAAAG
1 ATTTTAAAAAATATAAAAATATTAAAAG
* * *
22840918 ATTGTAAAAATTATAAAAAAATTA
1 ATTTTAAAAAATATAAAAATATTA
22840942 TTAGAAATTG
Statistics
Matches: 43, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
27 23 0.53
28 20 0.47
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (28 bp):
ATTTTAAAAAATATAAAAATATTAAAAG
Found at i:22840936 original size:20 final size:19
Alignment explanation
Indices: 22840912--22840964 Score: 52
Period size: 20 Copynumber: 2.7 Consensus size: 19
22840902 AAAAAAATAT
*
22840912 TAAAAGATTGTAAAAATTA
1 TAAAAAATTGTAAAAATTA
* * *
22840931 TAAAAAAATTATTAGAAATTG
1 T-AAAAAATT-GTAAAAATTA
22840952 TAAAAAATTGTAA
1 TAAAAAATTGTAA
22840965 TTTTAAAAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
19 3 0.12
20 15 0.58
21 8 0.31
ACGTcount: A:0.58, C:0.00, G:0.09, T:0.32
Consensus pattern (19 bp):
TAAAAAATTGTAAAAATTA
Found at i:22840936 original size:30 final size:30
Alignment explanation
Indices: 22840888--22840957 Score: 83
Period size: 28 Copynumber: 2.4 Consensus size: 30
22840878 AATATGTTAG
* *
22840888 AAATTTTAAAAAATA-AAAAAA--TATTAA
1 AAATTGTAAAAATTATAAAAAAATTATTAA
*
22840915 AAGATTGTAAAAATTATAAAAAAATTATTAG
1 AA-ATTGTAAAAATTATAAAAAAATTATTAA
22840946 AAATTGTAAAAA
1 AAATTGTAAAAA
22840958 ATTGTAATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
27 2 0.06
28 11 0.31
29 6 0.17
30 10 0.28
31 7 0.19
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (30 bp):
AAATTGTAAAAATTATAAAAAAATTATTAA
Found at i:22847562 original size:18 final size:18
Alignment explanation
Indices: 22847539--22847583 Score: 90
Period size: 18 Copynumber: 2.5 Consensus size: 18
22847529 GTTAACTCTA
22847539 AAAAGAAGAGAATTTTTC
1 AAAAGAAGAGAATTTTTC
22847557 AAAAGAAGAGAATTTTTC
1 AAAAGAAGAGAATTTTTC
22847575 AAAAGAAGA
1 AAAAGAAGA
22847584 TGTTGTTCCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (18 bp):
AAAAGAAGAGAATTTTTC
Found at i:22854672 original size:42 final size:42
Alignment explanation
Indices: 22854595--22854862 Score: 283
Period size: 42 Copynumber: 6.3 Consensus size: 42
22854585 ATGTCGCTAA
* **
22854595 CTTTTGCGGCGCTTACAGAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTTGA-AAAAAACGCCGCTAAAGATCATGTT
* *
22854638 CTTTAGCGGCGCTTTGAAAAAAATGCTGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTTGAAAAAAACGCCGCTAAAGATCATGTT
* * * *
22854680 CTTTAGTGGCGCTTTGAAAAAAATGCCACTAAAGATCGTGTT
1 CTTTAGCGGCGCTTTGAAAAAAACGCCGCTAAAGATCATGTT
*
22854722 CTTTAGCGGCGCTTTGAAAAAAACGCCGCTAAAGATCGTGTT
1 CTTTAGCGGCGCTTTGAAAAAAACGCCGCTAAAGATCATGTT
* ** *
22854764 CTTTAGCGGCACTTTGGAGGAAAACGCCGCTAAA-AGTAATGTT
1 CTTTAGCGGCGCTTT-GAAAAAAACGCCGCTAAAGA-TCATGTT
* ** *
22854807 CTTTAACGGCGC-TTGTTCAAAAATGCCGCTAATAG-T-AGTGTT
1 CTTTAGCGGCGCTTTG-AAAAAAACGCCGCTAA-AGATCA-TGTT
*
22854849 CTTTAGCGGTGCTT
1 CTTTAGCGGCGCTT
22854863 ATTTCACAAA
Statistics
Matches: 193, Mismatches: 25, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
41 2 0.01
42 144 0.75
43 47 0.24
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.29
Consensus pattern (42 bp):
CTTTAGCGGCGCTTTGAAAAAAACGCCGCTAAAGATCATGTT
Found at i:22855338 original size:21 final size:21
Alignment explanation
Indices: 22855314--22855354 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
22855304 TCTATCGCTG
*
22855314 CTTCTCTCGCTGTAGCCTCTA
1 CTTCCCTCGCTGTAGCCTCTA
*
22855335 CTTCCCTCGCTGTCGCCTCT
1 CTTCCCTCGCTGTAGCCTCT
22855355 GCTTTAAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.05, C:0.44, G:0.15, T:0.37
Consensus pattern (21 bp):
CTTCCCTCGCTGTAGCCTCTA
Found at i:22856959 original size:11 final size:10
Alignment explanation
Indices: 22856925--22856955 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
22856915 GCAAAGTTAA
22856925 ATTAAAAAAT
1 ATTAAAAAAT
22856935 ATTAAAAAGAT
1 ATTAAAAA-AT
22856946 ATTAAAAAAT
1 ATTAAAAAAT
22856956 TATTTTGCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (10 bp):
ATTAAAAAAT
Found at i:22858041 original size:147 final size:146
Alignment explanation
Indices: 22857786--22858121 Score: 327
Period size: 147 Copynumber: 2.3 Consensus size: 146
22857776 CCTCGTATCG
* * * * *
22857786 ATAAATGTTAAAACATTTTTGCGGCATTTTAATTAAAGCGCCACTAACTATAAATCAAAACGCAG
1 ATAAATGTTAAAACAATGTTGCGGCATTTTAAGTAAAGCGCCACTAAATATAAATCAAAACGAAG
* * *
22857851 TCGCTTCATCAACACTTACCTCAAACCCTTGGCGTTTTAAAAAAATCACCACTAATAACATTTAA
66 TCGCTTCACCAACACTTAACTCAAACCCTTGGCGTTTCAAAAAAA-CACCACTAATAACATTTAA
22857916 AAAACGGCAGCGTTTCT
130 AAAACGGCAGCGTTTCT
* * *
22857933 ATAAATGTTAGAACAATGTTGTGGCATTTTAAGTAAAGCGCCACTAAATATACGATC-AAACGAA
1 ATAAATGTTAAAACAATGTTGCGGCATTTTAAGTAAAGCGCCACTAAATATA-AATCAAAACGAA
* * * * * * * * * *
22857997 GTCGTTTCCCCAACATTTAACTC-AAGCTTGTGGCGTTTCCAAAAAACGCCACTAGTACCATTGA
65 GTCGCTTCACCAACACTTAACTCAAACCCT-TGGCGTTTCAAAAAAACACCACTAATAACATTTA
* * * * *
22858061 CAAAACGACAACATTTCG
129 AAAAACGGCAGCGTTTCT
** * * * *
22858079 ATAAA-CATAAATACAATTTTGCAGCGTTTTATGTAAAGCGCCA
1 ATAAATGTTAAA-ACAATGTTGCGGCATTTTAAGTAAAGCGCCA
22858122 GTAATAGCAA
Statistics
Matches: 152, Mismatches: 34, Indels: 7
0.79 0.18 0.04
Matches are distributed among these distances:
145 3 0.02
146 62 0.41
147 84 0.55
148 3 0.02
ACGTcount: A:0.38, C:0.21, G:0.13, T:0.28
Consensus pattern (146 bp):
ATAAATGTTAAAACAATGTTGCGGCATTTTAAGTAAAGCGCCACTAAATATAAATCAAAACGAAG
TCGCTTCACCAACACTTAACTCAAACCCTTGGCGTTTCAAAAAAACACCACTAATAACATTTAAA
AAACGGCAGCGTTTCT
Found at i:22859092 original size:14 final size:14
Alignment explanation
Indices: 22859075--22859117 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 14
22859065 TACTAAACAT
22859075 TAAACCTTAAACTA
1 TAAACCTTAAACTA
22859089 TAAAACCCCTTAAACTA
1 T-AAA--CCTTAAACTA
*
22859106 TAACCCTTAAAC
1 TAAACCTTAAAC
22859118 CTCTTAAACC
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
14 9 0.36
15 3 0.12
16 2 0.08
17 11 0.44
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.26
Consensus pattern (14 bp):
TAAACCTTAAACTA
Found at i:22859730 original size:114 final size:114
Alignment explanation
Indices: 22859528--22859750 Score: 254
Period size: 114 Copynumber: 2.0 Consensus size: 114
22859518 TGCTAAATCC
* * * * * *
22859528 CCGAATACTCAGAGAACGGTGTCGTTTGACTTATGTTTATTTGCGGCGCTTCTATACAAACGCCG
1 CCGAATACTCAGAAAACGGCGTCGTTGGACTTAGGTTTATTTGCGGCGATTCTATAAAAACGCCG
* * *
22859593 CTAAAGTACTGAACATTAGCGGCGC-TACCTCAAAAACGCCGCTAGGTTA
66 CTAAAGTACTGAACATTAACGGCGCTTA-ATAAAAAACGCCGCTAGGTTA
* * * *
22859642 CCGAATGCTCAGAAAACGGCGTCGTTGGTCTTAGGTTTCTTTGTGGCGATT-TATCAAAAACGCC
1 CCGAATACTCAGAAAACGGCGTCGTTGGACTTAGGTTTATTTGCGGCGATTCTAT-AAAAACGCC
* * *
22859706 GCTAAA-TCCTTGATCTTTAACGGCGCTTAATAAAAAACGCCGCTA
65 GCTAAAGTAC-TGAACATTAACGGCGCTTAATAAAAAACGCCGCTA
22859751 AATCCCCGCA
Statistics
Matches: 90, Mismatches: 16, Indels: 6
0.80 0.14 0.05
Matches are distributed among these distances:
113 5 0.06
114 83 0.92
115 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (114 bp):
CCGAATACTCAGAAAACGGCGTCGTTGGACTTAGGTTTATTTGCGGCGATTCTATAAAAACGCCG
CTAAAGTACTGAACATTAACGGCGCTTAATAAAAAACGCCGCTAGGTTA
Found at i:22865072 original size:41 final size:41
Alignment explanation
Indices: 22865015--22865098 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
22865005 TATGTATACA
22865015 TAAAGATCAACCATGCCAAAACACATTCATCACTTTGAAAG
1 TAAAGATCAACCATGCCAAAACACATTCATCACTTTGAAAG
22865056 TAAAGATCAACCATGCCAAAACACATTCATCACTTTGAAAG
1 TAAAGATCAACCATGCCAAAACACATTCATCACTTTGAAAG
22865097 TA
1 TA
22865099 TTTAGCCATC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.44, C:0.24, G:0.10, T:0.23
Consensus pattern (41 bp):
TAAAGATCAACCATGCCAAAACACATTCATCACTTTGAAAG
Found at i:22866106 original size:13 final size:13
Alignment explanation
Indices: 22866090--22866121 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
22866080 ATCAAGCCCA
*
22866090 TAAATATTTTTAG
1 TAAATATTTCTAG
22866103 TAAATATTTCTAG
1 TAAATATTTCTAG
22866116 TAAATA
1 TAAATA
22866122 CTTATGGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (13 bp):
TAAATATTTCTAG
Found at i:22877031 original size:149 final size:149
Alignment explanation
Indices: 22876761--22877058 Score: 596
Period size: 149 Copynumber: 2.0 Consensus size: 149
22876751 ACCACGCATT
22876761 CTATCTTGGTGAATTGCTCTGTGTTTACTATCCTAGGGGACTATCTCGTATTTAATGTCCCATCG
1 CTATCTTGGTGAATTGCTCTGTGTTTACTATCCTAGGGGACTATCTCGTATTTAATGTCCCATCG
22876826 GACTAACTATGATTTCATAGCGTCTTTCAGCTATGGTCTTACACCATATAACCCCATGTTTACTG
66 GACTAACTATGATTTCATAGCGTCTTTCAGCTATGGTCTTACACCATATAACCCCATGTTTACTG
22876891 TCCTAATGGACTATCAAAA
131 TCCTAATGGACTATCAAAA
22876910 CTATCTTGGTGAATTGCTCTGTGTTTACTATCCTAGGGGACTATCTCGTATTTAATGTCCCATCG
1 CTATCTTGGTGAATTGCTCTGTGTTTACTATCCTAGGGGACTATCTCGTATTTAATGTCCCATCG
22876975 GACTAACTATGATTTCATAGCGTCTTTCAGCTATGGTCTTACACCATATAACCCCATGTTTACTG
66 GACTAACTATGATTTCATAGCGTCTTTCAGCTATGGTCTTACACCATATAACCCCATGTTTACTG
22877040 TCCTAATGGACTATCAAAA
131 TCCTAATGGACTATCAAAA
22877059 GATGCCATAA
Statistics
Matches: 149, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
149 149 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (149 bp):
CTATCTTGGTGAATTGCTCTGTGTTTACTATCCTAGGGGACTATCTCGTATTTAATGTCCCATCG
GACTAACTATGATTTCATAGCGTCTTTCAGCTATGGTCTTACACCATATAACCCCATGTTTACTG
TCCTAATGGACTATCAAAA
Found at i:22892874 original size:3 final size:3
Alignment explanation
Indices: 22892866--22892904 Score: 60
Period size: 3 Copynumber: 12.7 Consensus size: 3
22892856 TTATCATCTT
*
22892866 TTA TTA TTA TTA TTG TTA TTA TTA GTTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TT
22892905 TCCTCATCTA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:22893598 original size:110 final size:109
Alignment explanation
Indices: 22893402--22893725 Score: 474
Period size: 110 Copynumber: 3.0 Consensus size: 109
22893392 TTCAAAAAAC
* *
22893402 AAAAATTTTCAAATAAGGCAATGTTTTGCTTTTAGAAATTCGAGAAAACATGCCCTAAGGTGCTG
1 AAAAATTTTCAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
*
22893467 GGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT
66 GGTGTCGATTTTTCTCGTTCAACCAAATGGCTAAATATCCTTTT
* *
22893511 AAAAAATTTTAAAATAAGGCAATGTCTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCT
1 -AAAAATTTTCAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCT
*
22893576 GGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTT
65 GGGTGTCGATTTTTCTCGTTCAACCAAATGGCTAAATATCCTTTT
* * * * * *
22893621 AAAAATTCTCAAATAAAGCAATGTTTTGCGTTTGGAAATTCGAG-GAACGTGCTCTAATGTGCTG
1 AAAAATTTTCAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
* * * *
22893685 GGTTTCGA--TTTCTCGTTTAACCAAATAGCCAAATATCCTTT
66 GGTGTCGATTTTTCTCGTTCAACCAAATGGCTAAATATCCTTT
22893726 GGAATTTCAA
Statistics
Matches: 195, Mismatches: 19, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
106 29 0.15
108 23 0.12
109 40 0.21
110 103 0.53
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (109 bp):
AAAAATTTTCAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
GGTGTCGATTTTTCTCGTTCAACCAAATGGCTAAATATCCTTTT
Found at i:22903378 original size:112 final size:113
Alignment explanation
Indices: 22903155--22903440 Score: 267
Period size: 112 Copynumber: 2.5 Consensus size: 113
22903145 TCTGAAGACT
* * *
22903155 AAAACGCATCGTTTTGGTCTTGATGTATACTAGAATTAGTGGCGTTTATGATAAAACACTGCTAA
1 AAAACGCATCGTTTTGGTCTCGATGTATACTAGAATTAGTGGCGTTTACGATAAAACACCGCTAA
* * * * ** *
22903220 AGGAAGTATTAGCGGCGCATTGTCGCAAGCGTTGCAAAAATCTTAACG
66 AGCAAGTATTAGCGGCACATTCTAGCAAGCGACGCAAAAATCTTAACC
* * * * *
22903268 AAAACGCATCGTTTT-GTCTCGCTGTATATTAGCATTAGTGGCGTTTACGA-AAACCCGCCGCTA
1 AAAACGCATCGTTTTGGTCTCGATGTATACTAGAATTAGTGGCGTTTACGATAAA-ACACCGCTA
* *
22903331 AAGCAAGTATTAGCGGCAC-TTACTAG-AAGCGACGCAATATATGTTAACC
65 AAGCAAGTATTAGCGGCACATT-CTAGCAAGCGACGCAA-AAATCTTAACC
** * * * * * * **
22903380 AAAACGCAGAG-TTTGGTCTAGAGGTATATTAGAATTTGTGGCGCTTATGGCAAAACACCGC
1 AAAACGCATCGTTTTGGTCTCGATGTATACTAGAATTAGTGGCGTTTACGATAAAACACCGC
22903441 AAAATATCCT
Statistics
Matches: 139, Mismatches: 29, Indels: 11
0.78 0.16 0.06
Matches are distributed among these distances:
111 17 0.12
112 104 0.75
113 18 0.13
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.28
Consensus pattern (113 bp):
AAAACGCATCGTTTTGGTCTCGATGTATACTAGAATTAGTGGCGTTTACGATAAAACACCGCTAA
AGCAAGTATTAGCGGCACATTCTAGCAAGCGACGCAAAAATCTTAACC
Found at i:22903787 original size:115 final size:110
Alignment explanation
Indices: 22903506--22904047 Score: 448
Period size: 115 Copynumber: 4.7 Consensus size: 110
22903496 GTGTTTAAGG
* * * * *
22903506 GAAAACACCGCTAAAGCATAATATTAGCTGCGTTTTGTGAGAAGCGCCGCAAAATATCTTAACCA
1 GAAAACGCCGCTAAAGCATACTATTAGCGGCG-TGT-TGAGAAGCGCCGCAAAATATCGTAACCA
* * * **
22903571 CAACGCAGAGTTTGGTCTTGAGGTATACTAGAATTAGTGGCGCAAAGG
64 AAACGCAGAGTTTTGTCTTGAGGTATAC-AGAATTAGTGGCGCATACT
* * * *
22903619 GAACACGCCGCTAAGGCATACTATTAGCGGCGCGTTCGGAGAAGCGCCGCAAAATTTCGTAACCA
1 GAAAACGCCGCTAAAGCATACTATTAGCGGCGTGTT--GAGAAGCGCCGCAAAATATCGTAACCA
* *
22903684 AAACGCA-ACGTTTTTGTCTTGATGTATACAGTTATTAGTGGCGCATACT
64 AAACGCAGA-G-TTTTGTCTTGAGGTATACAG-AATTAGTGGCGCATACT
* * * *
22903733 GAAAAGCGCCGCTAAACCATAGTATTA-CTGGCGTGTTGCAAAAGGCGCCGCAAAATAT-GCTCA
1 GAAAA-CGCCGCTAAAGCATACTATTAGC-GGCGTGTTG-AGAA-GCGCCGCAAAATATCG-TAA
* * *
22903796 CCAAAACGCAGAGTTTTGTCTTGAGGTATATTAGAATTAGTGGCGCTTATTT
61 CCAAAACGCAGAGTTTTGTCTTGAGGTATA-CAGAATTAGTGGCGCATA-CT
* * * ** **
22903848 GAGAACGCCGCTAAAGCATACTATTAGCGGCGCATTTTGAGAAGAGCCATAAAATATATTAACCA
1 GAAAACGCCGCTAAAGCATACTATTAGCGGCG--TGTTGAGAAGCGCCGCAAAATATCGTAACCA
* * * *
22903913 AAACGCA-ACGTTTAAGTCTTGATGTATACTGGAATTAGTGGCGTC-CAC-
64 AAACGCAGA-GTTT-TGTCTTGAGGTATAC-AGAATTAGTGGCG-CATACT
* * ** *
22903961 GAGAAATCGCCGCTAAAGCATAGTATTAGCGGCGCTTTTTGAGAAGCGCCGGGAAATATCTTAAC
1 GA-AAA-CGCCGCTAAAGCATACTATTAGCGGCG--TGTTGAGAAGCGCCGCAAAATATCGTAAC
*
22904026 CAAAACGTAGAGTTTTGGTCTT
62 CAAAACGCAGAGTTTT-GTCTT
22904048 AACCATGCAT
Statistics
Matches: 349, Mismatches: 55, Indels: 48
0.77 0.12 0.11
Matches are distributed among these distances:
111 1 0.00
112 2 0.01
113 65 0.19
114 119 0.34
115 155 0.44
116 7 0.02
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.25
Consensus pattern (110 bp):
GAAAACGCCGCTAAAGCATACTATTAGCGGCGTGTTGAGAAGCGCCGCAAAATATCGTAACCAAA
ACGCAGAGTTTTGTCTTGAGGTATACAGAATTAGTGGCGCATACT
Found at i:22903952 original size:229 final size:228
Alignment explanation
Indices: 22903549--22904047 Score: 589
Period size: 229 Copynumber: 2.2 Consensus size: 228
22903539 TTTGTGAGAA
*
22903549 GCGCCGCAAAATATCTTAACCACAACGCAGAGTTTGGTCTTGAGGTATACTAGAATTAGTGGCGC
1 GCGCCGCAAAATATCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTATACTAGAATTAGTGGCGC
* * * * * *
22903614 AAAGGGAACACGCCGCTAAGGCATACTATTAGCGGCGCGTTCGGAGAAGCGCCGCAAAATTTCGT
66 AAAGGGAACACGCCGCTAAAGCATACTATTAGCGGCGCATTCGGAGAAGAGCCACAAAATATAGT
** ** *
22903679 AACCAAAACGCAACGTTTTTGTCTTGATGTATACAGTTATTAGTGGCG-CATACTGA-AAAGCGC
131 AACCAAAACGCAACGTTTAAGTCTTGATGTATACAGGAATTAGTGGCGTC-CAC-GAGAAAGCGC
22903742 CGCTAAACCATAGTATTACTGGCGTGTTGCAAAAG
194 CGCTAAACCATAGTATTACTGGCGTGTTGCAAAAG
* * *
22903777 GCGCCGCAAAATATGC-TCACCAAAACGCAGAGTTTTGTCTTGAGGTATATTAGAATTAGTGGCG
1 GCGCCGCAAAATAT-CTTAACCAAAACGCAGAGTTTGGTCTTGAGGTATACTAGAATTAGTGGCG
* *** ** *
22903841 CTTATTTGAGA-ACGCCGCTAAAGCATACTATTAGCGGCGCATTTTGAGAAGAGCCATAAAATAT
65 C-AAAGGGA-ACACGCCGCTAAAGCATACTATTAGCGGCGCATTCGGAGAAGAGCCACAAAATAT
* * *
22903905 ATTAACCAAAACGCAACGTTTAAGTCTTGATGTATACTGGAATTAGTGGCGTCCACGAGAAATCG
128 AGTAACCAAAACGCAACGTTTAAGTCTTGATGTATACAGGAATTAGTGGCGTCCACGAGAAAGCG
* * *
22903970 CCGCTAAAGCATAGTATTAGC-GGCGCTTTTTG-AGAA-
193 CCGCTAAACCATAGTATTA-CTGGCG--TGTTGCAAAAG
** *
22904006 GCGCCGGGAAATATCTTAACCAAAACGTAGAGTTTTGGTCTT
1 GCGCCGCAAAATATCTTAACCAAAACGCAGAG-TTTGGTCTT
22904048 AACCATGCAT
Statistics
Matches: 228, Mismatches: 33, Indels: 18
0.82 0.12 0.06
Matches are distributed among these distances:
228 62 0.27
229 148 0.65
230 14 0.06
231 4 0.02
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (228 bp):
GCGCCGCAAAATATCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTATACTAGAATTAGTGGCGC
AAAGGGAACACGCCGCTAAAGCATACTATTAGCGGCGCATTCGGAGAAGAGCCACAAAATATAGT
AACCAAAACGCAACGTTTAAGTCTTGATGTATACAGGAATTAGTGGCGTCCACGAGAAAGCGCCG
CTAAACCATAGTATTACTGGCGTGTTGCAAAAG
Found at i:22906712 original size:12 final size:12
Alignment explanation
Indices: 22906695--22906721 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
22906685 TTTTACTTCA
22906695 TTTAACAGAATG
1 TTTAACAGAATG
22906707 TTTAACAGAATG
1 TTTAACAGAATG
22906719 TTT
1 TTT
22906722 TACTTCATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.41
Consensus pattern (12 bp):
TTTAACAGAATG
Found at i:22908615 original size:9 final size:9
Alignment explanation
Indices: 22908596--22908916 Score: 180
Period size: 9 Copynumber: 37.4 Consensus size: 9
22908586 CACAAATTAA
22908596 ATAACTTAC
1 ATAACTTAC
22908605 ATTAA-TTAC
1 A-TAACTTAC
22908614 ATAACTTAC
1 ATAACTTAC
* * *
22908623 AAAAATTAA
1 ATAACTTAC
22908632 ATAACTTAC
1 ATAACTTAC
22908641 ATAACTTAC
1 ATAACTTAC
* *
22908650 ATAAATTAA
1 ATAACTTAC
22908659 ATAACTTAC
1 ATAACTTAC
22908668 ATAACTTAC
1 ATAACTTAC
* *
22908677 ATAAGTAAC
1 ATAACTTAC
22908686 ATAA---A-
1 ATAACTTAC
*
22908691 TTAACTTAC
1 ATAACTTAC
22908700 ATAACTTAC
1 ATAACTTAC
22908709 ATAACTTAC
1 ATAACTTAC
* * *
22908718 AAAAATTAA
1 ATAACTTAC
*
22908727 ATAGCTTAC
1 ATAACTTAC
22908736 ATAACTTAC
1 ATAACTTAC
* *
22908745 ATAAATTAA
1 ATAACTTAC
**
22908754 ATAACTGGC
1 ATAACTTAC
22908763 ATAACTTAC
1 ATAACTTAC
*
22908772 ATTA--TAC
1 ATAACTTAC
22908779 ATAACGTT-C
1 ATAAC-TTAC
*
22908788 TTAACTTAC
1 ATAACTTAC
*
22908797 ATTA--TAC
1 ATAACTTAC
* *
22908804 ACAACTCAC
1 ATAACTTAC
* *
22908813 ATAA-TGAT
1 ATAACTTAC
* *
22908821 GT-A-GTAC
1 ATAACTTAC
*
22908828 ACAACTTAC
1 ATAACTTAC
22908837 ATAA--TAC
1 ATAACTTAC
* *
22908844 AT-ATTCTATT
1 ATAACT-TA-C
*
22908854 ATAGCTTAC
1 ATAACTTAC
*
22908863 ATTACTTAC
1 ATAACTTAC
22908872 AGT-ACTTAC
1 A-TAACTTAC
22908881 ATAA--TAC
1 ATAACTTAC
22908888 ATAA--TAC
1 ATAACTTAC
22908895 ATAACTTAC
1 ATAACTTAC
22908904 ATAACTTAC
1 ATAACTTAC
22908913 ATAA
1 ATAA
22908917 TACATAAAAA
Statistics
Matches: 234, Mismatches: 55, Indels: 46
0.70 0.16 0.14
Matches are distributed among these distances:
5 3 0.01
6 2 0.01
7 32 0.14
8 11 0.05
9 176 0.75
10 9 0.04
11 1 0.00
ACGTcount: A:0.46, C:0.17, G:0.03, T:0.33
Consensus pattern (9 bp):
ATAACTTAC
Found at i:22908695 original size:23 final size:23
Alignment explanation
Indices: 22908669--22908712 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
22908659 ATAACTTACA
*
22908669 TAACTTACATAAGTAACATAAAT
1 TAACTTACATAACTAACATAAAT
*
22908692 TAACTTACATAACTTACATAA
1 TAACTTACATAACTAACATAA
22908713 CTTACAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.50, C:0.16, G:0.02, T:0.32
Consensus pattern (23 bp):
TAACTTACATAACTAACATAAAT
Found at i:22908890 original size:7 final size:7
Alignment explanation
Indices: 22908878--22908923 Score: 56
Period size: 7 Copynumber: 6.0 Consensus size: 7
22908868 TTACAGTACT
22908878 TACATAA
1 TACATAA
22908885 TACATAA
1 TACATAA
22908892 TACATAA
1 TACATAA
22908899 CTTACATAA
1 --TACATAA
22908908 CTTACATAA
1 --TACATAA
22908917 TACATAA
1 TACATAA
22908924 AAATATATCA
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
7 21 0.57
9 16 0.43
ACGTcount: A:0.52, C:0.17, G:0.00, T:0.30
Consensus pattern (7 bp):
TACATAA
Found at i:22908902 original size:32 final size:32
Alignment explanation
Indices: 22908860--22908923 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
22908850 TATTATAGCT
*
22908860 TACATTACTTACAGT-ACTTACATAATACATAA
1 TACATAACTTACA-TAACTTACATAATACATAA
22908892 TACATAACTTACATAACTTACATAATACATAA
1 TACATAACTTACATAACTTACATAATACATAA
22908924 AAATATATCA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 1 0.03
32 29 0.97
ACGTcount: A:0.47, C:0.19, G:0.02, T:0.33
Consensus pattern (32 bp):
TACATAACTTACATAACTTACATAATACATAA
Found at i:22908913 original size:25 final size:23
Alignment explanation
Indices: 22908875--22908923 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 23
22908865 TACTTACAGT
22908875 ACTTACATAATACATAATACATA
1 ACTTACATAATACATAATACATA
22908898 ACTTACATAACTTACATAATACATA
1 ACTTACATAA--TACATAATACATA
22908923 A
1 A
22908924 AAATATATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 10 0.42
25 14 0.58
ACGTcount: A:0.51, C:0.18, G:0.00, T:0.31
Consensus pattern (23 bp):
ACTTACATAATACATAATACATA
Found at i:22914449 original size:66 final size:66
Alignment explanation
Indices: 22914377--22914511 Score: 216
Period size: 66 Copynumber: 2.0 Consensus size: 66
22914367 GACCACAGCT
* *
22914377 GAGGTTCAAAGGAAATATGAAGAACTCCAGCTACAACTTAAAGCAGAGGCTGCAGCGAGAGAAGC
1 GAGGTTCAAAAGAAATATGAAGAACTCCAGCTACAACTTAAAGCAGAGGCGGCAGCGAGAGAAGC
22914442 A
66 A
* * * *
22914443 GAGGTTCAAAAGAAATATGAAGAACTCCAGCTACGACTTAAAGCTGATGCGGCATCGAGAGAAGC
1 GAGGTTCAAAAGAAATATGAAGAACTCCAGCTACAACTTAAAGCAGAGGCGGCAGCGAGAGAAGC
22914508 A
66 A
22914509 GAG
1 GAG
22914512 CAGAGCAGAA
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
66 63 1.00
ACGTcount: A:0.40, C:0.18, G:0.27, T:0.15
Consensus pattern (66 bp):
GAGGTTCAAAAGAAATATGAAGAACTCCAGCTACAACTTAAAGCAGAGGCGGCAGCGAGAGAAGC
A
Found at i:22914977 original size:42 final size:42
Alignment explanation
Indices: 22914930--22915059 Score: 181
Period size: 42 Copynumber: 3.1 Consensus size: 42
22914920 CGTTAAAAAA
* *
22914930 CATGTTCTTTAGCGGCACTTAATAAAAAACGCCACTAAAGAT
1 CATGTTCTTCAGCGGCGCTTAATAAAAAACGCCACTAAAGAT
* *
22914972 CATGTTCTTCAGCGGCGCTTAATAAAAAATGCCACTAAATAT
1 CATGTTCTTCAGCGGCGCTTAATAAAAAACGCCACTAAAGAT
* * *
22915014 CATGTTCTTCAGCAGCGCTT-ATAAAAAAACGTCACTAAAGAA
1 CATGTTCTTCAGCGGCGCTTAAT-AAAAAACGCCACTAAAGAT
22915056 CATG
1 CATG
22915060 GTTTTGCCGC
Statistics
Matches: 78, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
41 2 0.03
42 76 0.97
ACGTcount: A:0.38, C:0.22, G:0.15, T:0.26
Consensus pattern (42 bp):
CATGTTCTTCAGCGGCGCTTAATAAAAAACGCCACTAAAGAT
Found at i:22915202 original size:22 final size:22
Alignment explanation
Indices: 22915175--22915218 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
22915165 TTGTGGCGTT
*
22915175 AAAAAGCGCCGCTAAAGGCCTA
1 AAAAAGCGCCGCTAAAGACCTA
* *
22915197 AAAAAGCGTCGTTAAAGACCTA
1 AAAAAGCGCCGCTAAAGACCTA
22915219 TTTTGATATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.43, C:0.23, G:0.20, T:0.14
Consensus pattern (22 bp):
AAAAAGCGCCGCTAAAGACCTA
Found at i:22915969 original size:42 final size:42
Alignment explanation
Indices: 22915922--22916012 Score: 137
Period size: 42 Copynumber: 2.2 Consensus size: 42
22915912 GGCCAAGTCT
* *
22915922 CATGCCCATGTGCTAGGCCGTGTGTCACACACGGATGAGCCA
1 CATGCCCATGTGCTAGGCCGTGTGTCACACACGGATAAGACA
** *
22915964 CATGCCTGTGTGCTAGGCCGTGTGTCACACACGGCTAAGACA
1 CATGCCCATGTGCTAGGCCGTGTGTCACACACGGATAAGACA
22916006 CATGCCC
1 CATGCCC
22916013 GTATGGATGA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.21, C:0.32, G:0.27, T:0.20
Consensus pattern (42 bp):
CATGCCCATGTGCTAGGCCGTGTGTCACACACGGATAAGACA
Found at i:22916937 original size:25 final size:24
Alignment explanation
Indices: 22916899--22916979 Score: 90
Period size: 25 Copynumber: 3.3 Consensus size: 24
22916889 AATGCTTATA
*
22916899 TGAGCACATAAACGGGAAGCTCATG
1 TGAGC-CATTAACGGGAAGCTCATG
* **
22916924 TGAGCCATGTAACGGGAAGTTCCGG
1 TGAGCCAT-TAACGGGAAGCTCATG
* *
22916949 CGAGCCATTAACGGGAAGCTCATA
1 TGAGCCATTAACGGGAAGCTCATG
22916973 TGAGCCA
1 TGAGCCA
22916980 ATATCGAGAA
Statistics
Matches: 45, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
24 21 0.47
25 24 0.53
ACGTcount: A:0.31, C:0.22, G:0.30, T:0.17
Consensus pattern (24 bp):
TGAGCCATTAACGGGAAGCTCATG
Found at i:22916977 original size:24 final size:24
Alignment explanation
Indices: 22916886--22916979 Score: 89
Period size: 25 Copynumber: 3.8 Consensus size: 24
22916876 AATCATATTT
* *
22916886 GGGAATGCTTATATGAGCACATAAAC
1 GGGAA-GCTCATATGAGC-CATTAAC
*
22916912 GGGAAGCTCATGTGAGCCATGTAAC
1 GGGAAGCTCATATGAGCCAT-TAAC
* ****
22916937 GGGAAGTTCCGGCGAGCCATTAAC
1 GGGAAGCTCATATGAGCCATTAAC
22916961 GGGAAGCTCATATGAGCCA
1 GGGAAGCTCATATGAGCCA
22916980 ATATCGAGAA
Statistics
Matches: 55, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
24 21 0.38
25 29 0.53
26 5 0.09
ACGTcount: A:0.31, C:0.20, G:0.30, T:0.19
Consensus pattern (24 bp):
GGGAAGCTCATATGAGCCATTAAC
Found at i:22917001 original size:49 final size:49
Alignment explanation
Indices: 22916900--22917018 Score: 123
Period size: 49 Copynumber: 2.4 Consensus size: 49
22916890 ATGCTTATAT
* * * * **
22916900 GAGCACATAAACGGGAAGCTCATGTGAGCCATGTAACGGGAAGTTCCGGC
1 GAGC-CATTAACGGGAAGCTCATATGAGCCATATAACGAGAAGTTCAAGC
*
22916950 GAGCCATTAACGGGAAGCTCATATGAGCCA-ATATCGAGAAGGTTCAAGC
1 GAGCCATTAACGGGAAGCTCATATGAGCCATATAACGAGAA-GTTCAAGC
* **
22916999 GAGCCAATATTGGGAAGCTC
1 GAGCCATTAACGGGAAGCTC
22917019 CAGAGAGACA
Statistics
Matches: 58, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
48 7 0.12
49 47 0.81
50 4 0.07
ACGTcount: A:0.32, C:0.21, G:0.29, T:0.18
Consensus pattern (49 bp):
GAGCCATTAACGGGAAGCTCATATGAGCCATATAACGAGAAGTTCAAGC
Found at i:22922508 original size:18 final size:19
Alignment explanation
Indices: 22922463--22922511 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
22922453 TCAAATTTTG
*
22922463 AAAATAATTTTTA-AAATTC
1 AAAAT-ATTTATAGAAATTC
22922482 AAAATATTTATAGAAATTC
1 AAAATATTTATAGAAATTC
*
22922501 TAAA-ATTTATA
1 AAAATATTTATA
22922512 CTTTTAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 13 0.48
19 14 0.52
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (19 bp):
AAAATATTTATAGAAATTC
Found at i:22922891 original size:21 final size:21
Alignment explanation
Indices: 22922867--22922908 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
22922857 TTACCTCTTC
*
22922867 TAAAGTTAAAAGTCAAAACTA
1 TAAAGTTAAAAGGCAAAACTA
*
22922888 TAAAGTTAAACGGCAAAACTA
1 TAAAGTTAAAAGGCAAAACTA
22922909 CGCTATTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.55, C:0.12, G:0.12, T:0.21
Consensus pattern (21 bp):
TAAAGTTAAAAGGCAAAACTA
Found at i:22922965 original size:21 final size:21
Alignment explanation
Indices: 22922941--22923018 Score: 63
Period size: 21 Copynumber: 3.8 Consensus size: 21
22922931 CTTTTCTAAT
*
22922941 GTTAAAAGTCAAAACTATAAA
1 GTTAAAAGGCAAAACTATAAA
** *
22922962 GTTAAAAGGC---TTTCTAAA
1 GTTAAAAGGCAAAACTATAAA
** *
22922980 GTTAAAAAATCAAAACTATCAA
1 GTT-AAAAGGCAAAACTATAAA
22923002 GTTAAAAGGCAAAACTA
1 GTTAAAAGGCAAAACTA
22923019 ACTTTCCTTC
Statistics
Matches: 41, Mismatches: 12, Indels: 8
0.67 0.20 0.13
Matches are distributed among these distances:
18 8 0.20
19 5 0.12
21 21 0.51
22 7 0.17
ACGTcount: A:0.53, C:0.12, G:0.12, T:0.24
Consensus pattern (21 bp):
GTTAAAAGGCAAAACTATAAA
Found at i:22922976 original size:39 final size:40
Alignment explanation
Indices: 22922933--22923011 Score: 124
Period size: 40 Copynumber: 2.0 Consensus size: 40
22922923 ATGTTTACCT
* *
22922933 TTTCTAATGTT-AAAAGTCAAAACTATAAAGTTAAAAGGC
1 TTTCTAAAGTTAAAAAATCAAAACTATAAAGTTAAAAGGC
*
22922972 TTTCTAAAGTTAAAAAATCAAAACTATCAAGTTAAAAGGC
1 TTTCTAAAGTTAAAAAATCAAAACTATAAAGTTAAAAGGC
22923012 AAAACTAACT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
39 10 0.28
40 26 0.72
ACGTcount: A:0.48, C:0.11, G:0.11, T:0.29
Consensus pattern (40 bp):
TTTCTAAAGTTAAAAAATCAAAACTATAAAGTTAAAAGGC
Found at i:22932432 original size:21 final size:21
Alignment explanation
Indices: 22932406--22932460 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
22932396 TTTTTAAAAT
22932406 TTTAAATATAATTAAAAA-ACA
1 TTTAAATATAATTAAAAATA-A
**
22932427 TTTAAATATCTTTAAAAATAA
1 TTTAAATATAATTAAAAATAA
22932448 TTTAAA-A-AATTAA
1 TTTAAATATAATTAA
22932461 TAATTTAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 4 0.14
20 1 0.03
21 23 0.79
22 1 0.03
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (21 bp):
TTTAAATATAATTAAAAATAA
Found at i:22932442 original size:31 final size:30
Alignment explanation
Indices: 22932398--22932456 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 30
22932388 CATATTATTT
*
22932398 TTTAAAATTTTAAATATAA-TTAAAAAACA
1 TTTAAAATTTTAAAAATAATTTAAAAAACA
22932427 TTTAAATATCTTTAAAAATAATTTAAAAAA
1 TTTAAA-AT-TTTAAAAATAATTTAAAAAA
22932457 TTAATAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 6 0.23
30 2 0.08
31 10 0.38
32 8 0.31
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (30 bp):
TTTAAAATTTTAAAAATAATTTAAAAAACA
Found at i:22932481 original size:15 final size:17
Alignment explanation
Indices: 22932443--22932484 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
22932433 TATCTTTAAA
22932443 AATAATTT-AAAAAATT
1 AATAATTTAAAAAAATT
22932459 AATAATTTAAAAAAATT
1 AATAATTTAAAAAAATT
22932476 -AT-ATTTAAA
1 AATAATTTAAA
22932485 TTTTAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.28
16 10 0.40
17 8 0.32
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
AATAATTTAAAAAAATT
Found at i:22932487 original size:21 final size:19
Alignment explanation
Indices: 22932462--22932503 Score: 57
Period size: 21 Copynumber: 2.1 Consensus size: 19
22932452 AAAAATTAAT
22932462 AATTTAAAAAAATTATATTTA
1 AATTTAAAAAAA--ATATTTA
*
22932483 AATTTTAAAAAAATATTTA
1 AATTTAAAAAAAATATTTA
22932502 AA
1 AA
22932504 ATATTATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 9 0.45
21 11 0.55
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
AATTTAAAAAAAATATTTA
Found at i:22932513 original size:22 final size:21
Alignment explanation
Indices: 22932456--22932520 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 21
22932446 AATTTAAAAA
22932456 ATTAATAA-TTTAAAAAAATTAT
1 ATTAA-AATTTTAAAAAAA-TAT
*
22932478 ATTTAAATTTTAAAAAAATAT
1 ATTAAAATTTTAAAAAAATAT
22932499 -TTAAAATATTATAAAACAAATA
1 ATTAAAAT-TT-TAAAA-AAATA
22932521 ATAAATTTGA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
20 6 0.16
21 7 0.19
22 19 0.51
23 5 0.14
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (21 bp):
ATTAAAATTTTAAAAAAATAT
Found at i:22932604 original size:21 final size:21
Alignment explanation
Indices: 22932561--22932672 Score: 105
Period size: 21 Copynumber: 5.5 Consensus size: 21
22932551 ATATATTTTA
*
22932561 AATATTTTATAATATTAAAAAAT
1 AATA-TTTAAAAT-TTAAAAAAT
*
22932584 AATATTTAAAATTTTAAAAAT
1 AATATTTAAAATTTAAAAAAT
22932605 AATATTT-AAATTTAAAAAAT
1 AATATTTAAAATTTAAAAAAT
*
22932625 AAT-TTT--AA---AAAATAT
1 AATATTTAAAATTTAAAAAAT
22932640 -ATATTTAAAATTTAAAAAAAT
1 AATATTTAAAATTT-AAAAAAT
22932661 AATATTATAAAA
1 AATATT-TAAAA
22932673 CATTTCAAAT
Statistics
Matches: 75, Mismatches: 5, Indels: 18
0.77 0.05 0.18
Matches are distributed among these distances:
14 2 0.03
15 9 0.12
17 2 0.03
18 2 0.03
19 3 0.04
20 15 0.20
21 21 0.28
22 12 0.16
23 9 0.12
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
AATATTTAAAATTTAAAAAAT
Found at i:22932631 original size:13 final size:15
Alignment explanation
Indices: 22932614--22932649 Score: 58
Period size: 13 Copynumber: 2.5 Consensus size: 15
22932604 TAATATTTAA
22932614 ATTTAAAAAATA-AT
1 ATTTAAAAAATATAT
22932628 -TTTAAAAAATATAT
1 ATTTAAAAAATATAT
22932642 ATTTAAAA
1 ATTTAAAA
22932650 TTTAAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 11 0.55
14 2 0.10
15 7 0.35
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
ATTTAAAAAATATAT
Found at i:22932652 original size:23 final size:23
Alignment explanation
Indices: 22932625--22932672 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
22932615 TTTAAAAAAT
*
22932625 AATTTTAAAAAATATATATT-TAA
1 AATTTAAAAAAATA-ATATTATAA
22932648 AATTTAAAAAAATAATATTATAA
1 AATTTAAAAAAATAATATTATAA
22932671 AA
1 AA
22932673 CATTTCAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 5 0.22
23 18 0.78
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (23 bp):
AATTTAAAAAAATAATATTATAA
Found at i:22932653 original size:41 final size:43
Alignment explanation
Indices: 22932542--22932655 Score: 110
Period size: 41 Copynumber: 2.7 Consensus size: 43
22932532 AGGTCATATC
22932542 TTTAAAATAATATAT-TTTAAATATTTTATAATATTAAAAAATAATA
1 TTTAAAA-AATATATATTTAAA-A-TTTA-AATATTAAAAAATAATA
* * * ** *
22932588 TTT-AAAATTTTAAAAATAATATTTAAAT-TTAAAAAATAAT-
1 TTTAAAAAATATATATTTAAAATTTAAATATTAAAAAATAATA
22932628 TTTAAAAAATATATATTTAAAATTTAAA
1 TTTAAAAAATATATATTTAAAATTTAAA
22932656 AAAATAATAT
Statistics
Matches: 54, Mismatches: 12, Indels: 9
0.72 0.16 0.12
Matches are distributed among these distances:
40 3 0.06
41 30 0.56
42 3 0.06
43 4 0.07
44 5 0.09
45 6 0.11
46 3 0.06
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (43 bp):
TTTAAAAAATATATATTTAAAATTTAAATATTAAAAAATAATA
Found at i:22932657 original size:34 final size:32
Alignment explanation
Indices: 22932593--22932672 Score: 106
Period size: 36 Copynumber: 2.3 Consensus size: 32
22932583 TAATATTTAA
22932593 AATTTTAAAAATAATATTTAAATTTAAAAAAT
1 AATTTTAAAAATAATATTTAAATTTAAAAAAT
22932625 AATTTTAAAAAATATATATTTAAAATTTAAAAAAAT
1 AATTTT-AAAAATA-ATATTT-AAATTT-AAAAAAT
*
22932661 AATATTATAAAA
1 AATTTTA-AAAA
22932673 CATTTCAAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
32 6 0.14
33 7 0.17
34 6 0.14
35 7 0.17
36 16 0.38
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (32 bp):
AATTTTAAAAATAATATTTAAATTTAAAAAAT
Found at i:22935388 original size:29 final size:28
Alignment explanation
Indices: 22935341--22935397 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
22935331 GTCAATAATT
*
22935341 TGTAAAAATTAAATCAAATCAAAATTCA
1 TGTAAAAATTAAATAAAATCAAAATTCA
* * *
22935369 TGTATAAAATTACATAAAATTAAAGTTCA
1 TGTA-AAAATTAAATAAAATCAAAATTCA
22935398 CCTAGGACAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 4 0.17
29 20 0.83
ACGTcount: A:0.54, C:0.09, G:0.05, T:0.32
Consensus pattern (28 bp):
TGTAAAAATTAAATAAAATCAAAATTCA
Found at i:22938504 original size:5 final size:5
Alignment explanation
Indices: 22938496--22938525 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
22938486 TTATTTTAAA
*
22938496 TTTCT TTTCT TTTCT TTTCT TCTCT TTTCT
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT
22938526 CAAATTCCTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (5 bp):
TTTCT
Found at i:22940999 original size:17 final size:17
Alignment explanation
Indices: 22940977--22941013 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
22940967 AGTTGATTTA
22940977 AGTTTCATGAAAATGTT
1 AGTTTCATGAAAATGTT
22940994 AGTTTCATGAAAATGTT
1 AGTTTCATGAAAATGTT
22941011 AGT
1 AGT
22941014 ATGTTCTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.35, C:0.05, G:0.19, T:0.41
Consensus pattern (17 bp):
AGTTTCATGAAAATGTT
Found at i:22947406 original size:22 final size:23
Alignment explanation
Indices: 22947376--22947442 Score: 57
Period size: 22 Copynumber: 3.0 Consensus size: 23
22947366 TGTAATATCC
22947376 AAATAATAACAACAAAATAGTA-A
1 AAAT-ATAACAACAAAATAGTAGA
* * * *
22947399 AAATATAATAGCAAAATGGTAGC
1 AAATATAACAACAAAATAGTAGA
* *
22947422 AAA-ACAACAACAAAATGGTAG
1 AAATATAACAACAAAATAGTAG
22947443 CAGGAAAAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
22 29 0.81
23 7 0.19
ACGTcount: A:0.61, C:0.10, G:0.12, T:0.16
Consensus pattern (23 bp):
AAATATAACAACAAAATAGTAGA
Found at i:22950359 original size:126 final size:123
Alignment explanation
Indices: 22950135--22950511 Score: 490
Period size: 126 Copynumber: 3.0 Consensus size: 123
22950125 TAAGGGTTTT
**
22950135 TAGGTC-CTGGAAGAAATAATTTCGAATTGACGTTTCTGA-TAAAATAATATAAAATCGCTTCTA
1 TAGGTCAC-GGAAGAAATAATTT--TTTTGACGTTTCTGAGT-AAATAATATAAAATCGCTTCTA
* * * *
22950198 GCAGGATGGTATTTGAGAAGAATTTGTGAAATCGCGCCCTCCTGGATGCGCTTTTGCTATAG
62 GCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCATGGACGCGCTTTTGCTACAG
* *
22950260 TAGGTCACGGAAGAAATAATTATTTTTTTGACGTTTCTGAGTAAATAGTATAAAATCGTTTCTAG
1 TAGGTCACGGAAGAAAT-A--ATTTTTTTGACGTTTCTGAGTAAATAATATAAAATCGCTTCTAG
* * * *
22950325 CATGATGCTATTTGAGAAGAATTTGTGAAATCGCGGCCTCGT-CAGCGCGCTTTTGCTACAG
63 CAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCATGGA-CGCGCTTTTGCTACAG
* * * *
22950386 TAGGTCATGTAAGAAATAATTTTTTTGACGTTTCTGAGCAAATAATATAAAATCGCTTCTAGTAG
1 TAGGTCACGGAAGAAATAATTTTTTTGACGTTTCTGAGTAAATAATATAAAATCGCTTCTAGCAG
* **
22950451 GATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCATGGACGCGTTTTTATTACAG
66 GATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCATGGACGCGCTTTTGCTACAG
22950509 TAG
1 TAG
22950512 CATGTTTGGG
Statistics
Matches: 221, Mismatches: 24, Indels: 16
0.85 0.09 0.06
Matches are distributed among these distances:
123 95 0.43
124 1 0.00
125 17 0.08
126 103 0.47
127 1 0.00
128 4 0.02
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.34
Consensus pattern (123 bp):
TAGGTCACGGAAGAAATAATTTTTTTGACGTTTCTGAGTAAATAATATAAAATCGCTTCTAGCAG
GATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCATGGACGCGCTTTTGCTACAG
Found at i:22953742 original size:116 final size:116
Alignment explanation
Indices: 22953538--22953755 Score: 382
Period size: 116 Copynumber: 1.9 Consensus size: 116
22953528 TGATAAATTG
*
22953538 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATACAATTATTAATTGT
1 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATAAAATTATTAATTGT
*
22953603 TAGTACTAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
66 TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
* * * *
22953654 TATTAAGTCAAAAATTTGTATTAATGGTTAGTAAAATTATGAAATTATGTAAAATTATTATTTGT
1 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATAAAATTATTAATTGT
22953719 TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTA
66 TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTA
22953756 CGTTAAGGTT
Statistics
Matches: 96, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
116 96 1.00
ACGTcount: A:0.42, C:0.09, G:0.10, T:0.39
Consensus pattern (116 bp):
TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATAAAATTATTAATTGT
TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
Found at i:22953795 original size:23 final size:20
Alignment explanation
Indices: 22953757--22953804 Score: 60
Period size: 23 Copynumber: 2.2 Consensus size: 20
22953747 CTAACATTAC
22953757 GTTAAGGTTAGAGTTTTTAAA
1 GTTAAGGTTAGAGTTTTT-AA
*
22953778 GTTAAGGGTTTAGGGTTTTTAA
1 GTTAA-GG-TTAGAGTTTTTAA
22953800 GTTAA
1 GTTAA
22953805 ATTAGGTTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 5 0.21
22 9 0.38
23 10 0.42
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.44
Consensus pattern (20 bp):
GTTAAGGTTAGAGTTTTTAA
Found at i:22953874 original size:23 final size:23
Alignment explanation
Indices: 22953787--22954639 Score: 885
Period size: 23 Copynumber: 35.9 Consensus size: 23
22953777 AGTTAAGGGT
22953787 TTAGGGTTTTTAAGTTAAATTAGG
1 TTAGGGTTTTTAA-TTAAATTAGG
22953811 TTAGGGTTAGGGTTT--TT-AATTAAGGG
1 TTAGGGTT----TTTAATTAAATT-A-GG
22953837 TTTAGGGTTTTTAATTAAATTAGG
1 -TTAGGGTTTTTAATTAAATTAGG
* **
22953861 CTAGAATTTTTAATTAAATTAGG
1 TTAGGGTTTTTAATTAAATTAGG
* *
22953884 TTAAGGTTTTTAAGTT-AA--GGG
1 TTAGGGTTTTTAA-TTAAATTAGG
*
22953905 TTTAGGGTTTATAATTAAATTAGG
1 -TTAGGGTTTTTAATTAAATTAGG
* *
22953929 CTAAGGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAATTAAATTAGG
*** * *
22953952 TTAGGGTTAGGATTTTTAATTAATGG
1 TTAGGGTTTTTA-ATTAAATT-A-GG
*
22953978 TTTAGGGTTTCTAATTAAATTAGG
1 -TTAGGGTTTTTAATTAAATTAGG
22954002 TTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAATTAAATTAGG
22954025 TTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAATTAAATTAGG
22954048 TTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAATTAAATTAGG
22954071 TTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAATTAAATTAGG
22954094 TTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAATTAAATTAGG
22954117 TTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAATTAAATTAGG
22954140 TTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAATTAAATTAGG
22954163 TTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAATTAAATTAGG
*
22954186 TTTAGGGTTTTTAATTAAATTAGA
1 -TTAGGGTTTTTAATTAAATTAGG
* *
22954210 TTAGGGTTAGGGTTT--TTAACTAAGGG
1 TTAGGGTT----TTTAATTAAATTA-GG
*
22954236 TTTAGGGTTTTTATTTAAATTAGG
1 -TTAGGGTTTTTAATTAAATTAGG
*
22954260 CTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAATTAAATTAGG
22954283 TTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAATTAAATTAGG
22954306 TTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAATTAAATTAGG
*
22954329 TTTAGGGTTTTTAAGTT-AA--GGG
1 -TTAGGGTTTTTAA-TTAAATTAGG
22954351 TTTAGGGTTTTTAATTAAATTAGG
1 -TTAGGGTTTTTAATTAAATTAGG
* * *** *
22954375 TTAGGGTTAGGGTTAGTGTTTTTTA-A
1 TTAGGGTT---TTTAAT-TAAATTAGG
22954401 TTAAGGGTTTAAGGTTTTTAATTAAATTAGG
1 TT-A--G-----GGTTTTTAATTAAATTAGG
*
22954432 CTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAATTAAATTAGG
* *
22954455 TTAAGGTTTTTTAATT-AA--GGG
1 TT-AGGGTTTTTAATTAAATTAGG
*
22954476 TTTAAGGTTTTTAATTAAATTAGG
1 -TTAGGGTTTTTAATTAAATTAGG
*
22954500 CTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAATTAAATTAGG
22954523 TTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAATTAAATTAGG
*
22954546 TTAGGGTTAGGGTT--TTAAATTAAGGG
1 TTAGGGTT---TTTAATTAAATT-A-GG
22954572 TTTAGGGTTTTTAATTAAATTAGG
1 -TTAGGGTTTTTAATTAAATTAGG
22954596 TTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAATTAAATTAGG
* *
22954619 CTATGGTTTTTAATTAAATTA
1 TTAGGGTTTTTAATTAAATTA
22954640 AATTAAGAGT
Statistics
Matches: 706, Mismatches: 64, Indels: 119
0.79 0.07 0.13
Matches are distributed among these distances:
21 19 0.03
22 35 0.05
23 444 0.63
24 92 0.13
25 24 0.03
26 32 0.05
27 41 0.06
28 4 0.01
29 1 0.00
30 5 0.01
31 5 0.01
34 4 0.01
ACGTcount: A:0.30, C:0.01, G:0.23, T:0.47
Consensus pattern (23 bp):
TTAGGGTTTTTAATTAAATTAGG
Found at i:22953949 original size:28 final size:29
Alignment explanation
Indices: 22953917--22953974 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 29
22953907 TAGGGTTTAT
22953917 AATTAAATTAGGCTAAGG-TTTTTAATTA
1 AATTAAATTAGGCTAAGGATTTTTAATTA
** * *
22953945 AATTAGGTTAGGGTTAGGATTTTTAATTA
1 AATTAAATTAGGCTAAGGATTTTTAATTA
22953974 A
1 A
22953975 TGGTTTAGGG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
28 14 0.56
29 11 0.44
ACGTcount: A:0.36, C:0.02, G:0.19, T:0.43
Consensus pattern (29 bp):
AATTAAATTAGGCTAAGGATTTTTAATTA
Found at i:22954397 original size:57 final size:57
Alignment explanation
Indices: 22954324--22954439 Score: 180
Period size: 57 Copynumber: 2.0 Consensus size: 57
22954314 TTTAATTAAA
* * *
22954324 TTAGGTTTAGGG-TTTTTAAGTTAAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGG
1 TTAGGGTTAGGGTTTTTTAA-TTAAGGGTTTAAGGTTTTTAATTAAATTAGGCTAGGG
*
22954381 TTAGGGTTAGTGTTTTTTAATTAAGGGTTTAAGGTTTTTAATTAAATTAGGCTAGGG
1 TTAGGGTTAGGGTTTTTTAATTAAGGGTTTAAGGTTTTTAATTAAATTAGGCTAGGG
22954438 TT
1 TT
22954440 TTTAATTAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
57 47 0.87
58 7 0.13
ACGTcount: A:0.25, C:0.01, G:0.28, T:0.47
Consensus pattern (57 bp):
TTAGGGTTAGGGTTTTTTAATTAAGGGTTTAAGGTTTTTAATTAAATTAGGCTAGGG
Found at i:22954526 original size:28 final size:27
Alignment explanation
Indices: 22954481--22954676 Score: 112
Period size: 23 Copynumber: 7.9 Consensus size: 27
22954471 AAGGGTTTAA
*
22954481 GGTTTTTAATTAAATTA-G---GCTAG
1 GGTTTTTAATTAAATTAGGTTAGGTAG
22954504 GGTTTTTAATTAAATTAGG-T---TAG
1 GGTTTTTAATTAAATTAGGTTAGGTAG
22954527 GGTTTTTAATTAAATTAGGTTAGGGTTAG
1 GGTTTTTAATTAAATTAGGTTA-GG-TAG
* *
22954556 GGTTTTAAATT-AA--GGGTT---TAG
1 GGTTTTTAATTAAATTAGGTTAGGTAG
22954577 GGTTTTTAATTAAATTAGG-T---TAG
1 GGTTTTTAATTAAATTAGGTTAGGTAG
*
22954600 GGTTTTTAATTAAATTAGGCTA--T--
1 GGTTTTTAATTAAATTAGGTTAGGTAG
** *
22954623 GGTTTTTAATTAAATTAAATTAAGAGTTTTG
1 GGTTTTTAATTAAATTAGGTT-AG-G--TAG
*
22954654 GGTTTTTAATTAATTTAGGTTAG
1 GGTTTTTAATTAAATTAGGTTAG
22954677 AGTTTAGGGT
Statistics
Matches: 142, Mismatches: 10, Indels: 35
0.76 0.05 0.19
Matches are distributed among these distances:
21 13 0.09
22 2 0.01
23 80 0.56
24 6 0.04
25 1 0.01
26 4 0.03
28 2 0.01
29 14 0.10
30 2 0.01
31 18 0.13
ACGTcount: A:0.30, C:0.01, G:0.22, T:0.47
Consensus pattern (27 bp):
GGTTTTTAATTAAATTAGGTTAGGTAG
Found at i:22954681 original size:30 final size:31
Alignment explanation
Indices: 22954623--22954687 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
22954613 ATTAGGCTAT
*
22954623 GGTTTTTAATTAAATTAAATTAAGAGTTTTG
1 GGTTTTTAATTAAATTAAATTAAGAGTTTAG
* **
22954654 GGTTTTTAATTAATTTAGGTT-AGAGTTTAG
1 GGTTTTTAATTAAATTAAATTAAGAGTTTAG
22954684 GGTT
1 GGTT
22954688 AAATTAGGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 12 0.40
31 18 0.60
ACGTcount: A:0.29, C:0.00, G:0.22, T:0.49
Consensus pattern (31 bp):
GGTTTTTAATTAAATTAAATTAAGAGTTTAG
Found at i:22954781 original size:44 final size:45
Alignment explanation
Indices: 22954713--22954799 Score: 133
Period size: 44 Copynumber: 2.0 Consensus size: 45
22954703 TTTTATTACA
*
22954713 TCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAAC
1 TCAAATAAACTTCTATTTTATTACATAAAATAATATCAAAATAAC
*
22954758 TCAAA-AAATTTCTATTCTT-TTACATAAAATAATATCAAAATA
1 TCAAATAAACTTCTATT-TTATTACATAAAATAATATCAAAATA
22954800 TTCAAAATAT
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
44 32 0.82
45 7 0.18
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.37
Consensus pattern (45 bp):
TCAAATAAACTTCTATTTTATTACATAAAATAATATCAAAATAAC
Found at i:22956213 original size:18 final size:18
Alignment explanation
Indices: 22956190--22956224 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
22956180 TTTTGTTGAG
22956190 TTATCTTTTCCATTTCAT
1 TTATCTTTTCCATTTCAT
22956208 TTATCTTTTCCATTTCA
1 TTATCTTTTCCATTTCA
22956225 GCTATTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.23, G:0.00, T:0.60
Consensus pattern (18 bp):
TTATCTTTTCCATTTCAT
Found at i:22956971 original size:20 final size:20
Alignment explanation
Indices: 22956941--22956988 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
22956931 TTTTTTACGT
22956941 TATTATTGTTTTA-TGGTAC
1 TATTATTGTTTTATTGGTAC
*
22956960 TATTACTTG-TTTATTGTTAC
1 TATTA-TTGTTTTATTGGTAC
22956980 TATTATTGT
1 TATTATTGT
22956989 CTATTATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 12 0.48
20 13 0.52
ACGTcount: A:0.21, C:0.06, G:0.12, T:0.60
Consensus pattern (20 bp):
TATTATTGTTTTATTGGTAC
Found at i:22961141 original size:19 final size:20
Alignment explanation
Indices: 22961104--22961143 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
22961094 GCAAATGTTC
22961104 TTTCATTCTTTACGATTTTT
1 TTTCATTCTTTACGATTTTT
*
22961124 TTTCATTTTTTA-GATTTTT
1 TTTCATTCTTTACGATTTTT
22961143 T
1 T
22961144 CTACTAAACC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.15, C:0.10, G:0.05, T:0.70
Consensus pattern (20 bp):
TTTCATTCTTTACGATTTTT
Found at i:22964001 original size:132 final size:132
Alignment explanation
Indices: 22963455--22964840 Score: 1970
Period size: 132 Copynumber: 10.5 Consensus size: 132
22963445 TAGACAGCGA
* * *
22963455 AGCAGATCCAAGATGGCGGATTTTACCT-CCTCGTGGTTACAGTGGAGTACATTGAAGCCAGTAA
1 AGCAGATCAAAGATGGCAGATTTTACCTCCCT-GAGGTTACAGTGGAGTACATTGAAGCCAGTAA
* * * * * *
22963519 TTCTACTTCCTTGGGCAGCAGTGAAATAGATTGAAGATTTCAGATCTTGCCTTCCT--GCATAGA
65 TTCTACTTCCCTGGACAGCAGCGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGC--AG-
* *
22963582 CAGCGG
127 TAGTGG
* * * * *
22963588 AGCAGATCGAAGATGGCAAATTTTACCTCCTTGAAGTTGCAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* * * *
22963653 TCTACTTCCCTGGGCAGTAGCGGAATAGACTGAAGATTTCAGATCTTGCCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGACAGCAGCGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGT
22963718 GG
131 GG
* * * * *
22963720 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGAAGTTGCAGTGGAGTACGTTGAAGCCAGTAAT
1 AGCAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* * *
22963785 TCT--TTCCCTGGACAGCAGCGGAATAGATTGAAGA--ACAGATCTTATCTCCCTAAGCAGTAGA
66 TCTACTTCCCTGGACAGCAGCGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGT
22963846 GG
131 GG
* ** *
22963848 AGTAGATCAAAGATGGTGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAATAAT
1 AGCAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* * * *
22963913 TCTA-TCTCCCTGGGCGGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGAAGTAG
66 TCTACT-TCCCTGGACAGCAGCGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAG
22963977 TGG
130 TGG
* * *
22963980 AGTAGATCGAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* * * *
22964045 TCTACTTCCCTGGTCAGCAGTGGAATAGATTGAAGATTT-AAATCTTGTCTCCCCAAGCAGTAGT
66 TCTACTTCCCTGGACAGCAGCGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGT
22964109 GG
131 GG
* * * *
22964111 AGCAGATCAAAGATGG-TGAATTTTACCTCTCTGTGGTTACAGTGGAGTACATTGAAGCTAGTAA
1 AGCAGATCAAAGATGGCAG-ATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAA
* * * *
22964175 TTCTACTTCCCTGGGCAGCAGCGGAATAGATTGAAGATTTTAGATCTTGCCTTCCT--GCATAGA
65 TTCTACTTCCCTGGACAGCAGCGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGC--AG-
*
22964238 TAGTGA
127 TAGTGG
* *
22964244 AGTAGAT-AGAAGATGGTAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAA
1 AGCAGATCA-AAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAA
*
22964308 TTCTACTTCCCTGGACAGCAGCGGAATAGATTGAAGATTTCAGATCTTGTCTCCTTAAGCAGTAG
65 TTCTACTTCCCTGGACAGCAGCGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAG
22964373 TGG
130 TGG
* *
22964376 AGCAAATCAAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAAT
*
22964441 TCTACTTCCCTGGACAGCAGCGGAATAGATTGAAGATTTCAGATCTTGTCTCCTTAAGCAGTAGT
66 TCTACTTCCCTGGACAGCAGCGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGT
22964506 GG
131 GG
* *
22964508 AGCAAATCAAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAAT
*
22964573 TCTACTTCCCTGGACAGCAGCGGAATAGATTGAAGATTTCAGATCTTGTCTCCTTAAGCAGTAGT
66 TCTACTTCCCTGGACAGCAGCGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGT
22964638 GG
131 GG
* *
22964640 AGCAAATCAAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* * * *
22964705 TCTACTTCCCTGGACAGCAGCAGAATAGATTGAAGATTACAGATCTTATCTCCCTAGGCAGTAGT
66 TCTACTTCCCTGGACAGCAGCGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGT
22964770 GG
131 GG
* *
22964772 AGCAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTGCAGTGGAGTATATTGAAGCCAGTAAT
1 AGCAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAAT
22964837 TCTA
66 TCTA
22964841 TCCCCCCGGT
Statistics
Matches: 1150, Mismatches: 85, Indels: 37
0.90 0.07 0.03
Matches are distributed among these distances:
128 86 0.07
129 1 0.00
130 58 0.05
131 118 0.10
132 659 0.57
133 221 0.19
134 3 0.00
135 4 0.00
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (132 bp):
AGCAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAAT
TCTACTTCCCTGGACAGCAGCGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGT
GG
Found at i:22964970 original size:44 final size:46
Alignment explanation
Indices: 22964902--22965009 Score: 136
Period size: 44 Copynumber: 2.4 Consensus size: 46
22964892 ATGTACTGGC
*
22964902 GTGAAGTAGATC-AAAGATACCAGATCTTGTCTTCCCATA-CTAGTG
1 GTGAAGTAGATCGAAAGATACCAGATATTGTCTTCCCATATC-AGTG
* *
22964947 GTGAAGTAGATCGAAA-A-AGCAGATATTGTCTTCCCATATCGGTG
1 GTGAAGTAGATCGAAAGATACCAGATATTGTCTTCCCATATCAGTG
*
22964991 GCGAAGTAGATCG-AAGATA
1 GTGAAGTAGATCGAAAGATA
22965010 AAAGTCTTAT
Statistics
Matches: 55, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
43 2 0.04
44 35 0.64
45 15 0.27
46 3 0.05
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (46 bp):
GTGAAGTAGATCGAAAGATACCAGATATTGTCTTCCCATATCAGTG
Found at i:22966526 original size:20 final size:20
Alignment explanation
Indices: 22966498--22966545 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
22966488 TTTTTTACGT
22966498 TATTATTGTTTTA-TGGTAC
1 TATTATTGTTTTATTGGTAC
*
22966517 TATTACTTG-TTTATTGTTAC
1 TATTA-TTGTTTTATTGGTAC
22966537 TATTATTGT
1 TATTATTGT
22966546 CTATTATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 12 0.48
20 13 0.52
ACGTcount: A:0.21, C:0.06, G:0.12, T:0.60
Consensus pattern (20 bp):
TATTATTGTTTTATTGGTAC
Found at i:22967774 original size:7 final size:7
Alignment explanation
Indices: 22967764--22967788 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
22967754 ATACATACAT
22967764 AATACTA
1 AATACTA
22967771 AATACTA
1 AATACTA
22967778 AATACTA
1 AATACTA
22967785 AATA
1 AATA
22967789 TCAATCGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:22968985 original size:51 final size:51
Alignment explanation
Indices: 22968930--22969045 Score: 205
Period size: 51 Copynumber: 2.3 Consensus size: 51
22968920 TATTTTAAAA
* * *
22968930 AAGGAAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTTG
1 AAGGAAATTGAGAGCAAATTGAAATTAAATATAGATTTGAGAGAATTTTGG
22968981 AAGGAAATTGAGAGCAAATTGAAATTAAATATAGATTTGAGAGAATTTTGG
1 AAGGAAATTGAGAGCAAATTGAAATTAAATATAGATTTGAGAGAATTTTGG
22969032 AAGGAAATTGAGAG
1 AAGGAAATTGAGAG
22969046 AATTTTGGAA
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 62 1.00
ACGTcount: A:0.45, C:0.01, G:0.26, T:0.28
Consensus pattern (51 bp):
AAGGAAATTGAGAGCAAATTGAAATTAAATATAGATTTGAGAGAATTTTGG
Found at i:22969042 original size:22 final size:22
Alignment explanation
Indices: 22969017--22969072 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
22969007 AAATATAGAT
22969017 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
22969039 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
22969061 TTGAGAGGAATT
1 TTGAGA-GAATT
22969073 GAGAGGAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 28 0.85
23 5 0.15
ACGTcount: A:0.39, C:0.00, G:0.32, T:0.29
Consensus pattern (22 bp):
TTGAGAGAATTTTGGAAGGAAA
Found at i:22969703 original size:6 final size:6
Alignment explanation
Indices: 22969692--22969716 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
22969682 GGGTTTAGGG
22969692 TTTATA TTTATA TTTATA TTTATA T
1 TTTATA TTTATA TTTATA TTTATA T
22969717 ATGTATACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TTTATA
Found at i:22977006 original size:21 final size:21
Alignment explanation
Indices: 22976968--22977007 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
22976958 ACTAACTCTT
*
22976968 AACCCCTAACCCCAAACCCCA
1 AACCCCTAACCACAAACCCCA
* *
22976989 AACCCCTAACTACTAACCC
1 AACCCCTAACCACAAACCC
22977008 TTAAACCTTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.53, G:0.00, T:0.10
Consensus pattern (21 bp):
AACCCCTAACCACAAACCCCA
Done.