Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007999.1 Hibiscus syriacus cultivar Beakdansim tig00110450_pilon, whole genome shotgun sequence
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: 11700749
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 12 of 50
Found at i:2970403 original size:17 final size:19
Alignment explanation
Indices: 2970381--2970423 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
2970371 GAAACATCAA
*
2970381 ATGCACT-TGA-TGCATCG
1 ATGCACTCTGAGTGCACCG
*
2970398 ATGCACTCTTAGTGCACCG
1 ATGCACTCTGAGTGCACCG
2970417 ATGCACT
1 ATGCACT
2970424 AAGGATCCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 7 0.32
18 2 0.09
19 13 0.59
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (19 bp):
ATGCACTCTGAGTGCACCG
Found at i:2977822 original size:22 final size:22
Alignment explanation
Indices: 2977795--2977841 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
2977785 TAAAGAACCA
*
2977795 AAATAAACTC-AAATATATCATT
1 AAATAAACTCTAAACATA-CATT
*
2977817 AAATAAAGTCTAAACATACATT
1 AAATAAACTCTAAACATACATT
2977839 AAA
1 AAA
2977842 CTAACCACCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 16 0.73
23 6 0.27
ACGTcount: A:0.57, C:0.13, G:0.02, T:0.28
Consensus pattern (22 bp):
AAATAAACTCTAAACATACATT
Found at i:2983957 original size:56 final size:54
Alignment explanation
Indices: 2983883--2984016 Score: 196
Period size: 56 Copynumber: 2.4 Consensus size: 54
2983873 GTTTACTCAT
* * *
2983883 ATAGTTCCCGTACGAAATTCATACACTTAGTATAAATTTCTTAATTTATGCACAC
1 ATAGTCCCCATACGAAATTCATACACTTAGTATAAATTTATTAATTT-TGCACAC
* * *
2983938 ATAGTGCCCATACAGAAATTCATACACTTAGTATGAATTTATTAATTTTGCACAG
1 ATAGTCCCCATAC-GAAATTCATACACTTAGTATAAATTTATTAATTTTGCACAC
2983993 ATAGTCCCCATACGAAATTCATAC
1 ATAGTCCCCATACGAAATTCATAC
2984017 CTGGTTTGCC
Statistics
Matches: 72, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
54 11 0.15
55 29 0.40
56 32 0.44
ACGTcount: A:0.36, C:0.20, G:0.10, T:0.34
Consensus pattern (54 bp):
ATAGTCCCCATACGAAATTCATACACTTAGTATAAATTTATTAATTTTGCACAC
Found at i:2984325 original size:19 final size:21
Alignment explanation
Indices: 2984273--2984325 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 21
2984263 TACCCCTACC
2984273 ATGGTATCGATACTACTATCCT
1 ATGGTATCGATACTACTAT-CT
2984295 ATGGTA-CTGATACT-CTAT-T
1 ATGGTATC-GATACTACTATCT
2984314 ATGGTATCGATA
1 ATGGTATCGATA
2984326 TCATTTTTGC
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
19 11 0.38
20 1 0.03
21 5 0.17
22 12 0.41
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (21 bp):
ATGGTATCGATACTACTATCT
Found at i:2984439 original size:21 final size:21
Alignment explanation
Indices: 2984390--2984457 Score: 81
Period size: 21 Copynumber: 3.4 Consensus size: 21
2984380 CCCCCTTCGG
*
2984390 TATCGATAGTGA-TGCAATCAA
1 TATCGATATTGATTGC-ATCAA
2984411 TA---ATATTGATTGCATCAA
1 TATCGATATTGATTGCATCAA
*
2984429 TATCGATATTGATTGCATCAC
1 TATCGATATTGATTGCATCAA
2984450 TATCGATA
1 TATCGATA
2984458 CTACTCAGAT
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
18 13 0.32
19 3 0.07
21 25 0.61
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (21 bp):
TATCGATATTGATTGCATCAA
Found at i:2986030 original size:15 final size:15
Alignment explanation
Indices: 2986010--2986040 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2986000 ACGTTAAAAC
*
2986010 TTTTATAATTTAAAT
1 TTTTATAAATTAAAT
2986025 TTTTATAAATTAAAT
1 TTTTATAAATTAAAT
2986040 T
1 T
2986041 GATGGAGTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TTTTATAAATTAAAT
Found at i:2995936 original size:10 final size:10
Alignment explanation
Indices: 2995917--2995949 Score: 50
Period size: 9 Copynumber: 3.3 Consensus size: 10
2995907 AACCCCACAT
2995917 AAAAATAAAAG
1 AAAAA-AAAAG
2995928 AAAAAAAAAG
1 AAAAAAAAAG
2995938 -AAAAAAAAG
1 AAAAAAAAAG
2995947 AAA
1 AAA
2995950 TAGAAGTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 9 0.43
10 7 0.33
11 5 0.24
ACGTcount: A:0.88, C:0.00, G:0.09, T:0.03
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:3011373 original size:29 final size:29
Alignment explanation
Indices: 3011285--3011380 Score: 120
Period size: 29 Copynumber: 3.2 Consensus size: 29
3011275 TTTCATTTAA
* * *
3011285 GTACATAAAGTATTTTTTGATCAAAATAA
1 GTACCTAAAGTATTTTTTGGTCAAAATAG
*
3011314 GTACCTAAAGTTATCTTTTTAGTCAAAATAG
1 GTACCTAAAG-TAT-TTTTTGGTCAAAATAG
*
3011345 GTATCTAAAGTATTTTTTGGTCAAAATAG
1 GTACCTAAAGTATTTTTTGGTCAAAATAG
*
3011374 ATACCTA
1 GTACCTA
3011381 CACTATTCAA
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
29 29 0.51
30 6 0.11
31 22 0.39
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (29 bp):
GTACCTAAAGTATTTTTTGGTCAAAATAG
Found at i:3011517 original size:28 final size:31
Alignment explanation
Indices: 3011477--3011554 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 31
3011467 GTTTGAATGG
*
3011477 TTTAGGCACCTATTTTGACATA-AA-ATAA-
1 TTTAGGTACCTATTTTGACATAGAAGATAAC
3011505 TTTAGGTACCTATTTTGA-ATAGTAAGATAAC
1 TTTAGGTACCTATTTTGACATAG-AAGATAAC
**
3011536 TTTAGGTATTTATTTTGAC
1 TTTAGGTACCTATTTTGAC
3011555 CAAAAAACAC
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
27 3 0.07
28 17 0.40
29 2 0.05
30 4 0.10
31 16 0.38
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.42
Consensus pattern (31 bp):
TTTAGGTACCTATTTTGACATAGAAGATAAC
Found at i:3011710 original size:13 final size:14
Alignment explanation
Indices: 3011682--3011729 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 14
3011672 AACAATAAAT
*
3011682 AAATAAATAGTTATA
1 AAATAAAT-TTTATA
3011697 AAAT-AATTTTATA
1 AAATAAATTTTATA
3011710 AAATAAAATTTTCATA
1 AAAT-AAATTTT-ATA
3011726 AAAT
1 AAAT
3011730 TATAATTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
13 9 0.31
14 3 0.10
15 10 0.34
16 7 0.24
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (14 bp):
AAATAAATTTTATA
Found at i:3013585 original size:15 final size:16
Alignment explanation
Indices: 3013542--3013585 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
3013532 TAATTTATAA
* *
3013542 TTATACATTAAATCTT
1 TTATAAATTAAATATT
*
3013558 TTATAATTTAAATATT
1 TTATAAATTAAATATT
3013574 TT-TAAATTAAAT
1 TTATAAATTAAAT
3013586 TAATGATGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
15 9 0.38
16 15 0.62
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (16 bp):
TTATAAATTAAATATT
Found at i:3014239 original size:27 final size:25
Alignment explanation
Indices: 3014208--3014257 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
3014198 CAAATTACTA
*
3014208 TTAACCGAATTAACCGGACTTTTTTCT
1 TTAACCG--TTAACCGAACTTTTTTCT
*
3014235 TTAACCGTTAATCGAACTTTTTT
1 TTAACCGTTAACCGAACTTTTTT
3014258 AAAAAAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 14 0.67
27 7 0.33
ACGTcount: A:0.26, C:0.20, G:0.10, T:0.44
Consensus pattern (25 bp):
TTAACCGTTAACCGAACTTTTTTCT
Found at i:3021767 original size:114 final size:114
Alignment explanation
Indices: 3021553--3021892 Score: 477
Period size: 114 Copynumber: 2.9 Consensus size: 114
3021543 ACTTGGCAAT
* * * ** *
3021553 ATCACGACACTCGAGACGGAACTACATAAGATATGAGAGTGGCACGGCCTCCTCAACTTTAATTA
1 ATCATGACACTC-TGACGGAACCACATAAGATATGAGAGTAACAAGGCCTCCTCAACTTTAATTA
*
3021618 TTTTTTAGTAAGTAACATATTTAGTCACCCAATTATTTTTTTTTAATAAC
65 TTTTTTAGTAAATAACATATTTAGTCACCCAATTATTTTTTTTTAATAAC
* *
3021668 ATCATGACACTCTGACGGAACCACGTAAGATATAAGAGTAACAAGGCCTCCTCAACTTTAATTAT
1 ATCATGACACTCTGACGGAACCACATAAGATATGAGAGTAACAAGGCCTCCTCAACTTTAATTAT
3021733 TTTTTAGTAAATAACATATTTAGTCACCCAATTATTGTTTTGGTTTTAATAAC
66 TTTTTAGTAAATAACATATTTAGTCACCCAATTA-T-TTTT--TTTTAATAAC
* * *
3021786 ATCATGACACTCTGGACGGAACCACCTAAGATATGAGGGTGGCACAA--CCTCCTCAACTTTAAT
1 ATCATGACACTCT-GACGGAACCACATAAGATATGAGAGT--AACAAGGCCTCCTCAACTTTAAT
*
3021849 TATTTTTTAGTAAATAACATATTTAGTCACCCAATTATTGTTTT
63 TATTTTTTAGTAAATAACATATTTAGTCACCCAATTATTTTTTT
3021893 GGTTTTAATT
Statistics
Matches: 204, Mismatches: 14, Indels: 14
0.88 0.06 0.06
Matches are distributed among these distances:
114 79 0.39
115 14 0.07
116 4 0.02
117 3 0.01
118 24 0.12
119 76 0.37
121 4 0.02
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34
Consensus pattern (114 bp):
ATCATGACACTCTGACGGAACCACATAAGATATGAGAGTAACAAGGCCTCCTCAACTTTAATTAT
TTTTTAGTAAATAACATATTTAGTCACCCAATTATTTTTTTTTAATAAC
Found at i:3021856 original size:119 final size:119
Alignment explanation
Indices: 3021553--3021901 Score: 525
Period size: 119 Copynumber: 3.0 Consensus size: 119
3021543 ACTTGGCAAT
* * **
3021553 ATCACGACACTC-GAGACGGAACTACATAAGATATGAGAGTGGCACGGCCTCCTCAACTTTAATT
1 ATCATGACACTCTG-GACGGAACCACATAAGATATGAGAGTGGCACAACCTCCTCAACTTTAATT
*
3021617 ATTTTTTAGTAAGTAACATATTTAGTCACCCAATTA-T-TTTT--TTTTAATAAC
65 ATTTTTTAGTAAATAACATATTTAGTCACCCAATTATTGTTTTGGTTTTAATAAC
* * *
3021668 ATCATGACACTCT-GACGGAACCACGTAAGATATAAGAGT--AACAAGGCCTCCTCAACTTTAAT
1 ATCATGACACTCTGGACGGAACCACATAAGATATGAGAGTGGCACAA--CCTCCTCAACTTTAAT
3021730 TATTTTTTAGTAAATAACATATTTAGTCACCCAATTATTGTTTTGGTTTTAATAAC
64 TATTTTTTAGTAAATAACATATTTAGTCACCCAATTATTGTTTTGGTTTTAATAAC
* *
3021786 ATCATGACACTCTGGACGGAACCACCTAAGATATGAGGGTGGCACAACCTCCTCAACTTTAATTA
1 ATCATGACACTCTGGACGGAACCACATAAGATATGAGAGTGGCACAACCTCCTCAACTTTAATTA
3021851 TTTTTTAGTAAATAACATATTTAGTCACCCAATTATTGTTTTGGTTTTAAT
66 TTTTTTAGTAAATAACATATTTAGTCACCCAATTATTGTTTTGGTTTTAAT
3021902 TTGGTCACCC
Statistics
Matches: 212, Mismatches: 12, Indels: 16
0.88 0.05 0.07
Matches are distributed among these distances:
112 2 0.01
114 75 0.35
115 12 0.06
116 4 0.02
118 23 0.11
119 92 0.43
121 4 0.02
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.35
Consensus pattern (119 bp):
ATCATGACACTCTGGACGGAACCACATAAGATATGAGAGTGGCACAACCTCCTCAACTTTAATTA
TTTTTTAGTAAATAACATATTTAGTCACCCAATTATTGTTTTGGTTTTAATAAC
Found at i:3027489 original size:24 final size:24
Alignment explanation
Indices: 3027462--3027513 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
3027452 TAGGGAAACA
* *
3027462 CAAAGGTTTAGTGCTTAGAACATT
1 CAAAGCTTTAGGGCTTAGAACATT
* *
3027486 CAAAGCTTTGGGGCTTGGAACATT
1 CAAAGCTTTAGGGCTTAGAACATT
3027510 CAAA
1 CAAA
3027514 ATTCTAGGTC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (24 bp):
CAAAGCTTTAGGGCTTAGAACATT
Found at i:3033284 original size:19 final size:20
Alignment explanation
Indices: 3033257--3033295 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
3033247 CGATATTACT
*
3033257 TTGTGCAGT-AGTATCGATA
1 TTGTCCAGTGAGTATCGATA
3033276 TTGTCCAGTGAGTATCGATA
1 TTGTCCAGTGAGTATCGATA
3033296 CTACTATGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.26, C:0.13, G:0.26, T:0.36
Consensus pattern (20 bp):
TTGTCCAGTGAGTATCGATA
Found at i:3033289 original size:44 final size:44
Alignment explanation
Indices: 3033223--3033320 Score: 133
Period size: 44 Copynumber: 2.2 Consensus size: 44
3033213 CAAACCAACG
* * * **
3033223 GTATCGATACTGTTCAGAGAGTATCGATATTACTTTGTGCAGTA
1 GTATCGATACTGTCCAGAGAGTATCGATACTACTATGTAAAGTA
* *
3033267 GTATCGATATTGTCCAGTGAGTATCGATACTACTATGTAAAGTA
1 GTATCGATACTGTCCAGAGAGTATCGATACTACTATGTAAAGTA
3033311 GTATCGATAC
1 GTATCGATAC
3033321 CTAACATGGT
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (44 bp):
GTATCGATACTGTCCAGAGAGTATCGATACTACTATGTAAAGTA
Found at i:3033826 original size:18 final size:18
Alignment explanation
Indices: 3033809--3033842 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
3033799 TATTCGAATA
3033809 ATTT-AATCGAATATAAT
1 ATTTAAATCGAATATAAT
3033826 ATTTAAATCGAATATAA
1 ATTTAAATCGAATATAA
3033843 AATCTTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (18 bp):
ATTTAAATCGAATATAAT
Found at i:3036312 original size:20 final size:21
Alignment explanation
Indices: 3036271--3036320 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
3036261 GTATGAACAA
*
3036271 TATCGATACTCATTCAAGTAG
1 TATCGATACTCATGCAAGTAG
* *
3036292 TGTCGATACT-ATGCTAGTAG
1 TATCGATACTCATGCAAGTAG
3036312 TATCGATAC
1 TATCGATAC
3036321 CTAGTAAGAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 16 0.64
21 9 0.36
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (21 bp):
TATCGATACTCATGCAAGTAG
Found at i:3042191 original size:27 final size:24
Alignment explanation
Indices: 3042136--3042191 Score: 58
Period size: 24 Copynumber: 2.2 Consensus size: 24
3042126 CTACTTTGTG
*
3042136 CAGTAGTATCGATACTAATATGTA
1 CAGTAGTATCGATACTAACATGTA
* *
3042160 AAGTAGTATTGATACCTAACATGGTA
1 CAGTAGTATCGATA-CTAACAT-GTA
3042186 TCAGTA
1 -CAGTA
3042192 CCCGTTTTGC
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
24 12 0.48
25 6 0.24
26 3 0.12
27 4 0.16
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (24 bp):
CAGTAGTATCGATACTAACATGTA
Found at i:3042262 original size:21 final size:21
Alignment explanation
Indices: 3042236--3042289 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
3042226 ACCAAAGGGG
*
3042236 TAGTATCGGTGCCATTGACTA
1 TAGTATCGGTACCATTGACTA
3042257 TAGTATCGGTACCATTGACTA
1 TAGTATCGGTACCATTGACTA
*
3042278 TGGTATCGGTAC
1 TAGTATCGGTAC
3042290 TACTATATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (21 bp):
TAGTATCGGTACCATTGACTA
Found at i:3042665 original size:142 final size:143
Alignment explanation
Indices: 3042404--3042689 Score: 484
Period size: 142 Copynumber: 2.0 Consensus size: 143
3042394 TGAAATCTCA
*
3042404 ATTTGGACTCGATTATGGTTCAAAATACTTTGTAAAAATTGTTTCAAATATATTTTAAGTGTAAA
1 ATTTGGACTCGATTATGGTTCAAAATACTTCGTAAAAATTGTTTCAAATATATTTTAAGTGTAAA
* **
3042469 TCCCAATTTTTAATTTAGTAAGTTGTAAAAATTGATATTTGAAAACTTAAAGTAATATTTGTAAT
66 TCCCAAATTTTAATTTAGTAAGGAGTAAAAATTGATATTTGAAAACTTAAAGTAATATTTGTAAT
3042534 ATTCGAATAATTT
131 ATTCGAATAATTT
* *
3042547 ATTT-GACTCGATTATGGTTCAAAATGCTTCGTAAAAGTTGTTTCAAATATATTTTAAGTGTAAA
1 ATTTGGACTCGATTATGGTTCAAAATACTTCGTAAAAATTGTTTCAAATATATTTTAAGTGTAAA
* **
3042611 TCTCAAATTTTAATTTAGTAAGGAGTAAAAATTGATATTTGAAAACTTGGAGTAATATTTGTAAT
66 TCCCAAATTTTAATTTAGTAAGGAGTAAAAATTGATATTTGAAAACTTAAAGTAATATTTGTAAT
3042676 ATTCGAATAATTT
131 ATTCGAATAATTT
3042689 A
1 A
3042690 ATTAAATATA
Statistics
Matches: 134, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
142 130 0.97
143 4 0.03
ACGTcount: A:0.38, C:0.07, G:0.13, T:0.42
Consensus pattern (143 bp):
ATTTGGACTCGATTATGGTTCAAAATACTTCGTAAAAATTGTTTCAAATATATTTTAAGTGTAAA
TCCCAAATTTTAATTTAGTAAGGAGTAAAAATTGATATTTGAAAACTTAAAGTAATATTTGTAAT
ATTCGAATAATTT
Found at i:3049315 original size:16 final size:17
Alignment explanation
Indices: 3049290--3049322 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
3049280 CGAGTCAGGA
3049290 CAATTATTAGGT-GGGT
1 CAATTATTAGGTCGGGT
*
3049306 CAATTTTTAGGTCGGGT
1 CAATTATTAGGTCGGGT
3049323 GATTATCGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.21, C:0.09, G:0.30, T:0.39
Consensus pattern (17 bp):
CAATTATTAGGTCGGGT
Found at i:3049855 original size:18 final size:18
Alignment explanation
Indices: 3049821--3049858 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
3049811 CAGATCAAAT
*
3049821 TTAATTATCATGTTTGGG
1 TTAATTATCAAGTTTGGG
3049839 TTAA-TATCAAGTATTGGG
1 TTAATTATCAAGT-TTGGG
3049857 TT
1 TT
3049859 GGGTAAATCG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.26, C:0.05, G:0.21, T:0.47
Consensus pattern (18 bp):
TTAATTATCAAGTTTGGG
Found at i:3051058 original size:42 final size:41
Alignment explanation
Indices: 3050955--3051189 Score: 147
Period size: 42 Copynumber: 5.5 Consensus size: 41
3050945 GTAAATCATA
* *
3050955 TAAAAAGT-ATGATTGAAAAATTAGGG-ATCCCAATTATAAAGG
1 TAAAAAGTGA-GATTGAAAAAATAGGGCAT--TAATTATAAAGG
* * * *
3050997 TAAAAAGTGATAATAAAAAAATAGAGGCATTAATTTTAAAGG
1 TAAAAAGTGAGATTGAAAAAATAG-GGCATTAATTATAAAGG
* * * *
3051039 TAAAAAGTGAGATTGAAAAAAAAACCAAGGGCCTAAATTAT-ATGAG
1 TAAAAAGTGAGATTG---AAAAAA--TAGGGCATTAATTATAAAG-G
* *
3051085 TAAAAAATGGGATTGAAAAAATTAGGG-ATCTCAATTATAAAGG
1 TAAAAAGTGAGATTGAAAAAA-TAGGGCAT-T-AATTATAAAGG
**
3051128 TAAAAAGTGAGATTGCAAAAAGCAGGAGC-TTAATTATAAAGG
1 TAAAAAGTGAGATTG-AAAAAATAGG-GCATTAATTATAAAGG
* * *
3051170 TACAAGGTGGGATTGAAAAA
1 TAAAAAGTGAGATTGAAAAA
3051190 CTTATGATCA
Statistics
Matches: 150, Mismatches: 28, Indels: 31
0.72 0.13 0.15
Matches are distributed among these distances:
41 6 0.04
42 67 0.45
43 33 0.22
44 11 0.07
45 8 0.05
46 23 0.15
47 2 0.01
ACGTcount: A:0.50, C:0.06, G:0.21, T:0.23
Consensus pattern (41 bp):
TAAAAAGTGAGATTGAAAAAATAGGGCATTAATTATAAAGG
Found at i:3052608 original size:23 final size:22
Alignment explanation
Indices: 3052588--3052629 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
3052578 AATATATGTT
3052588 TACCCACCCTGAAATTCTATGG
1 TACCCACCCTGAAATTCTATGG
*
3052610 TGCCCACCCTGAAATTCTAT
1 TACCCACCCTGAAATTCTAT
3052630 CATATCAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.26, C:0.33, G:0.12, T:0.29
Consensus pattern (22 bp):
TACCCACCCTGAAATTCTATGG
Found at i:3056110 original size:190 final size:191
Alignment explanation
Indices: 3055779--3056364 Score: 782
Period size: 190 Copynumber: 3.1 Consensus size: 191
3055769 CTTTTTTATT
*
3055779 ATTGCAAATTAAAATG-TAATTTTTAATTTGAATATTAGTAGAATAATTACTT-TTTCAATAAGA
1 ATTGCAAATTAAAA-GATAATTTTTAATTTGAATATTAGTAGGATAATTA-TTCTTTCAATAAG-
* * *
3055842 T-AATTTAAAAAGGTATTTGTTATATTTTTAATTTTGACTATTAAAAGATAATTATATAATTTTG
63 TCAATTTAAAAAGATATTTGTTATCTTTTTAATTTTGAATATTAAAAGATAATTATATAATTTTG
*
3055906 TATATTTTAAATTAAAATAATATTTGTTTAAGTTTGAATAGTAAAATGAGTTTTCCTTTTGACC
128 TATATTTCAAATTAAAATAATATTTGTTTAAGTTTGAATAGTAAAATGAGTTTTCCTTTTGACC
* *
3055970 ATTGCAAATTAAAAGATAATTTTT-ATTTGAATATTTGTAGGATAATTATTCTTTTAATAAGTCA
1 ATTGCAAATTAAAAGATAATTTTTAATTTGAATATTAGTAGGATAATTATTCTTTCAATAAGTCA
* *
3056034 ATTTAAAAAGATATTTGTTATCTTTTTAATTTTGAATATTAAAAGATAATTAAATACTTTTGTAT
66 ATTTAAAAAGATATTTGTTATCTTTTTAATTTTGAATATTAAAAGATAATTATATAATTTTGTAT
** *
3056099 ATTTCAAATTAAAATAATATTTGTTTAAGTTTGAATAGTAAAAAAAGTTTACCTTTTGACC
131 ATTTCAAATTAAAATAATATTTGTTTAAGTTTGAATAGTAAAATGAGTTTTCCTTTTGACC
* * * * *
3056160 ATTGTAAATT-AAATAT-ATTATTTAATTTGAATATTAGTAGGATAATTACTCTTTGAAT--GCC
1 ATTGCAAATTAAAAGATAATT-TTTAATTTGAATATTAGTAGGATAATTATTCTTTCAATAAGTC
* * * *
3056221 AATTTAAAAAATATATTTGTTA-CCTTTTAACTTTGAATATT-AAAGATAATTATAT-TTTTTGT
65 AATTT-AAAAAGATATTTGTTATCTTTTTAATTTTGAATATTAAAAGATAATTATATAATTTTGT
* * * **
3056283 ATATTTCAAATTAAAATAATATCTATTTAAGTTTGAAT-GTTAAAATGAGTTTTATCTTTTGAAT
129 ATATTTCAAATTAAAATAATATTTGTTTAAGTTTGAATAG-TAAAATGAGTTTT-CCTTTTGACC
*
3056347 ATTTCAAATTAAAAGATA
1 ATTGCAAATTAAAAGATA
3056365 TTATTATCTA
Statistics
Matches: 351, Mismatches: 34, Indels: 22
0.86 0.08 0.05
Matches are distributed among these distances:
185 1 0.00
186 52 0.15
187 28 0.08
188 32 0.09
189 26 0.07
190 190 0.54
191 22 0.06
ACGTcount: A:0.40, C:0.05, G:0.09, T:0.46
Consensus pattern (191 bp):
ATTGCAAATTAAAAGATAATTTTTAATTTGAATATTAGTAGGATAATTATTCTTTCAATAAGTCA
ATTTAAAAAGATATTTGTTATCTTTTTAATTTTGAATATTAAAAGATAATTATATAATTTTGTAT
ATTTCAAATTAAAATAATATTTGTTTAAGTTTGAATAGTAAAATGAGTTTTCCTTTTGACC
Found at i:3059401 original size:15 final size:15
Alignment explanation
Indices: 3059381--3059418 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
3059371 TGATGGATTT
3059381 TGTGATATCGTTGTA
1 TGTGATATCGTTGTA
3059396 TGTGATATCGTTGTA
1 TGTGATATCGTTGTA
3059411 TGTGATAT
1 TGTGATAT
3059419 AATACAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.21, C:0.05, G:0.26, T:0.47
Consensus pattern (15 bp):
TGTGATATCGTTGTA
Found at i:3077432 original size:18 final size:18
Alignment explanation
Indices: 3077386--3077432 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
3077376 TATCATTAGA
*
3077386 AATATATTAAATATTTTT
1 AATATATTAAATAATTTT
* *
3077404 CAT-TAGATAAATAATTTT
1 AATATA-TTAAATAATTTT
3077422 AATATATTAAA
1 AATATATTAAA
3077433 ATTAAAATTT
Statistics
Matches: 22, Mismatches: 5, Indels: 4
0.71 0.16 0.13
Matches are distributed among these distances:
17 2 0.09
18 18 0.82
19 2 0.09
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (18 bp):
AATATATTAAATAATTTT
Found at i:3077479 original size:11 final size:11
Alignment explanation
Indices: 3077463--3077525 Score: 51
Period size: 11 Copynumber: 5.9 Consensus size: 11
3077453 GTATTATAGA
3077463 ATTTTTAATAT
1 ATTTTTAATAT
3077474 ATTTTTAA-A-
1 ATTTTTAATAT
3077483 ATTTTATAAT-T
1 ATTTT-TAATAT
*** *
3077494 ATCAATAATGT
1 ATTTTTAATAT
*
3077505 AGTTTTAATAT
1 ATTTTTAATAT
3077516 ATTTTTAATA
1 ATTTTTAATA
3077526 ATGTAATTTT
Statistics
Matches: 39, Mismatches: 9, Indels: 8
0.70 0.16 0.14
Matches are distributed among these distances:
9 5 0.13
10 8 0.21
11 26 0.67
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.56
Consensus pattern (11 bp):
ATTTTTAATAT
Found at i:3080076 original size:78 final size:79
Alignment explanation
Indices: 3079976--3080122 Score: 206
Period size: 78 Copynumber: 1.9 Consensus size: 79
3079966 ATAAAAAAAT
* * * *
3079976 AACATTTTAGGTAGCGCACAATATTCACATTTCCGGTAG-AAAAATAATGTTTTAGGTAGCACTT
1 AACATTTTAAGTAGCGCACAATATTAACATTTCCGGTAGAAAAAATAATATTTTAAGTAGCACTT
3080040 TACTGTAAATTTTA
66 TACTGTAAATTTTA
* * * *
3080054 AACATTTTAAGTAGTGCGCAATATTAACATTTCTGGTAGAAAAAAATAATATTTTAAGTAGCGCT
1 AACATTTTAAGTAGCGCACAATATTAACATTTCCGGTAG-AAAAAATAATATTTTAAGTAGCACT
3080119 TTAC
65 TTAC
3080123 CGGAAATGTT
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
78 34 0.58
80 25 0.42
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (79 bp):
AACATTTTAAGTAGCGCACAATATTAACATTTCCGGTAGAAAAAATAATATTTTAAGTAGCACTT
TACTGTAAATTTTA
Found at i:3080135 original size:80 final size:78
Alignment explanation
Indices: 3079976--3080135 Score: 203
Period size: 80 Copynumber: 2.0 Consensus size: 78
3079966 ATAAAAAAAT
* * * *
3079976 AACATTTTAGGTAGCGCACAATATTCACATTTCCGGTAGAAAAATAATGTTTTAGGTAGCACTTT
1 AACATTTTAAGTAGCGCACAATATTAACATTTCCGGTAGAAAAATAATATTTTAAGTAGCACTTT
* * *
3080041 ACTGTAAATTTTA
66 ACCGGAAATGTTA
* * * *
3080054 AACATTTTAAGTAGTGCGCAATATTAACATTTCTGGTAGAAAAAAATAATATTTTAAGTAGCGCT
1 AACATTTTAAGTAGCGCACAATATTAACATTTCCGGTAG--AAAAATAATATTTTAAGTAGCACT
3080119 TTACCGGAAATGTTA
64 TTACCGGAAATGTTA
3080134 AA
1 AA
3080136 AAAATATTAA
Statistics
Matches: 69, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
78 34 0.49
80 35 0.51
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.34
Consensus pattern (78 bp):
AACATTTTAAGTAGCGCACAATATTAACATTTCCGGTAGAAAAATAATATTTTAAGTAGCACTTT
ACCGGAAATGTTA
Found at i:3080218 original size:7 final size:7
Alignment explanation
Indices: 3080206--3080237 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
3080196 AGACATCTCC
3080206 TATTTTG
1 TATTTTG
3080213 TATTTTG
1 TATTTTG
3080220 TATTTTG
1 TATTTTG
3080227 TATTTTG
1 TATTTTG
3080234 TATT
1 TATT
3080238 ACATTCCGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.16, C:0.00, G:0.12, T:0.72
Consensus pattern (7 bp):
TATTTTG
Found at i:3095631 original size:2 final size:2
Alignment explanation
Indices: 3095624--3095705 Score: 73
Period size: 2 Copynumber: 42.5 Consensus size: 2
3095614 ATTTTTAATT
* * * *
3095624 TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA -A TA AA TT TG TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
3095665 TA CA AA TA -A CT- TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3095705 T
1 T
3095706 TATTTTTGTA
Statistics
Matches: 65, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
1 4 0.06
2 61 0.94
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.48
Consensus pattern (2 bp):
TA
Found at i:3096827 original size:60 final size:58
Alignment explanation
Indices: 3096720--3096854 Score: 141
Period size: 60 Copynumber: 2.3 Consensus size: 58
3096710 AGAACCTTTG
* * * *
3096720 GTCCATAAGGACTTACCCTAACCGAAGCATAGGAGCCACCTGAAGGGAGTGCCCTCA-A
1 GTCCATAAGGACTTACCCTAAACAAAGCAAAGAAGCCACCTGAAGGGAGTG-CCTCAGA
*
3096778 GTCCATAAGGACTTACCC-AATGTACAAAGCAAAGAAGCCACCCT-AAGGGAGTGCCTTAGA
1 GTCCATAAGGACTTACCCTAA---ACAAAGCAAAGAAGCCA-CCTGAAGGGAGTGCCTCAGA
* *
3096838 GTCCATAAAGTCTTACC
1 GTCCATAAGGACTTACC
3096855 GCTCGTCCAT
Statistics
Matches: 65, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
57 2 0.03
58 18 0.28
59 4 0.06
60 38 0.58
61 3 0.05
ACGTcount: A:0.33, C:0.27, G:0.21, T:0.18
Consensus pattern (58 bp):
GTCCATAAGGACTTACCCTAAACAAAGCAAAGAAGCCACCTGAAGGGAGTGCCTCAGA
Found at i:3104069 original size:46 final size:46
Alignment explanation
Indices: 3104016--3104105 Score: 137
Period size: 46 Copynumber: 2.0 Consensus size: 46
3104006 GCCGCTATGT
* * *
3104016 ATTTTCATTTGTGGCATCC-TTCCATTCCAATTATGCACTGTTATAC
1 ATTTTCATTTATGGCATCCTTTCC-TGCCAATTATGCACAGTTATAC
3104062 ATTTTCATTTATGGCATCCTTTCCTGCCAATTATGCACAGTTAT
1 ATTTTCATTTATGGCATCCTTTCCTGCCAATTATGCACAGTTAT
3104106 TCATCTACCT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
46 36 0.90
47 4 0.10
ACGTcount: A:0.22, C:0.23, G:0.11, T:0.43
Consensus pattern (46 bp):
ATTTTCATTTATGGCATCCTTTCCTGCCAATTATGCACAGTTATAC
Found at i:3105864 original size:55 final size:55
Alignment explanation
Indices: 3104327--3105863 Score: 2398
Period size: 55 Copynumber: 28.0 Consensus size: 55
3104317 AACTCTATAG
* * * * * *
3104327 TTTGCACACGTAGTGCCAATACGGTAATTCACAAACTTATTAT-AATTTATGT-GG
1 TTTGCACACATAGTGCCCATACGGAAATTCATAAACTTATTATGAATTTCT-TAGT
* * * * * * *
3104381 GTTGCACATC-CACTACCAATACAGAAATTCATAAACATATTATGAATTTCTTAGT
1 TTTGCACA-CATAGTGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGT
* * *** *
3104436 TTTACACACAAAGTGCATGTACGAAAATTCATAAACTTATTATGAATTTCTTAGT
1 TTTGCACACATAGTGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGT
* * * * *
3104491 TTTGCACACAAAGTTCCCATACAGAAATTCATAAACTTATTATAAATTTCTTAAT
1 TTTGCACACATAGTGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGT
* *
3104546 TTTGCACATATAGTGCCCATAAGGAAATTCATAAACTTATTATGAATTTCTTAGT
1 TTTGCACACATAGTGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGT
* *
3104601 TTTGTACACATAGTGCCCTTACGGAAATTCATAAACTTATTATGAATTTCTTAGT
1 TTTGCACACATAGTGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGT
* *
3104656 TTTGCACACAAAGTGCCCATACGGAAATTCATAAACTTATTATGAATTTATTAGT
1 TTTGCACACATAGTGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGT
*
3104711 TTTGCACACATAGTGCCCATACGAAAATTCATAAACTTATTATGAATTTCTTAGT
1 TTTGCACACATAGTGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGT
*
3104766 TTTGCACACATAGTGCCCAAACGGAAATTCATAAACTTATTATGAATTTCTTAGT
1 TTTGCACACATAGTGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGT
* *
3104821 TTTGCACACGA-AGTGCCCATACGAAAATTCATAAACTTATTATGAATTTATTAGT
1 TTTGCACAC-ATAGTGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGT
3104876 TTTGCACACATAGTGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGT
1 TTTGCACACATAGTGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGT
*
3104931 TTTGCACACATAGTGCACATACGGAAATTCATAAACTTATTATGAATTTCTTAGT
1 TTTGCACACATAGTGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGT
* *
3104986 TTTGCACACATAGTGCCCTTATGGAAATTCATAAACTTATTATGAATTTCTTAGT
1 TTTGCACACATAGTGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGT
* * *
3105041 TTTGCACACAAAGTGCCCATATGAAAATTCATAAACTTATTATGAATTTCTTAGT
1 TTTGCACACATAGTGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGT
*
3105096 TTTGCACACATAGTGCCCATACAGAAATTCATAAACTTATTATGAATTTCTTAGT
1 TTTGCACACATAGTGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGT
* *
3105151 TTTGCACACATAGTGCCCATACAGAAATTCATAAACTTATTATGAATTTCGTAGT
1 TTTGCACACATAGTGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGT
* ** *
3105206 TTTGCACACAAAGTGCCCATACAAAAATTCATAAACTTATTATGAATTTATTAGT
1 TTTGCACACATAGTGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGT
3105261 TTTGCACACATAGTGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGT
1 TTTGCACACATAGTGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGT
* **
3105316 TTTGCACACATAGTGCACATACAAAAATTCATAAACTTATTATGAATTTCTTAGT
1 TTTGCACACATAGTGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGT
* * *
3105371 TCTGCACACATATTGCCCTTACGGAAATTCATAAACTTATTATGAATTTCTTAGT
1 TTTGCACACATAGTGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGT
* * *
3105426 TTTGCACACAAAGTGCCCATATGAAAATTCATAAACTTATTATGAATTTCTTAGT
1 TTTGCACACATAGTGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGT
*
3105481 TTTGCACACATAGTGCCCATACAGAAATTCATAAACTTATTATGAATTTCTTAGT
1 TTTGCACACATAGTGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGT
*
3105536 TTTGCACACATAGTGCCCATACGGAAATTCATAAAATTATTATGAATTTCTTAGT
1 TTTGCACACATAGTGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGT
* * *
3105591 TTTGCACACATAGTGCTCATACGAAAATTCATAAACTTATTATGAATTTCCTAGT
1 TTTGCACACATAGTGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGT
* * *
3105646 TTCGTACACAAAGTGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGT
1 TTTGCACACATAGTGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGT
* * *
3105701 TTTGCACACATAGTGCCCATACGAAAATTCATAAACATATTATGAATTTCTTATT
1 TTTGCACACATAGTGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGT
*
3105756 TTTGCACACATAGTGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAAT
1 TTTGCACACATAGTGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGT
*
3105811 TTTGCACACAAAGTGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTA
1 TTTGCACACATAGTGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTA
3105864 ACTTTTTGCA
Statistics
Matches: 1361, Mismatches: 116, Indels: 11
0.91 0.08 0.01
Matches are distributed among these distances:
54 36 0.03
55 1324 0.97
56 1 0.00
ACGTcount: A:0.35, C:0.17, G:0.11, T:0.36
Consensus pattern (55 bp):
TTTGCACACATAGTGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGT
Found at i:3106742 original size:28 final size:28
Alignment explanation
Indices: 3106710--3106772 Score: 117
Period size: 28 Copynumber: 2.2 Consensus size: 28
3106700 TCTCAATTAT
3106710 TTCATCCATCTCTTAGTTTTAATCTTAA
1 TTCATCCATCTCTTAGTTTTAATCTTAA
*
3106738 TTCATCCATCTCTTAGTTTTAATCTTAT
1 TTCATCCATCTCTTAGTTTTAATCTTAA
3106766 TTCATCC
1 TTCATCC
3106773 TTCTTTAAAC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.22, C:0.24, G:0.03, T:0.51
Consensus pattern (28 bp):
TTCATCCATCTCTTAGTTTTAATCTTAA
Found at i:3108181 original size:2 final size:2
Alignment explanation
Indices: 3108166--3108274 Score: 65
Period size: 2 Copynumber: 57.5 Consensus size: 2
3108156 TTGTTTTATT
*
3108166 TA TA TA T- TA T- TA TA TA T- TA TA GTA TA TA TA CA TA TA TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
* * * *
3108205 TA -A T- TA TA TT TA TG T- TA TA TA TT TA TA TA T- TA TA TA GA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
3108243 TA GTA TT TA TA TT TA TA TA TA TA GTA TA -A TA T
1 TA -TA TA TA TA TA TA TA TA TA TA -TA TA TA TA T
3108275 TTTTTTTAAA
Statistics
Matches: 82, Mismatches: 13, Indels: 24
0.69 0.11 0.20
Matches are distributed among these distances:
1 9 0.11
2 67 0.82
3 6 0.07
ACGTcount: A:0.41, C:0.01, G:0.05, T:0.53
Consensus pattern (2 bp):
TA
Found at i:3108203 original size:32 final size:29
Alignment explanation
Indices: 3108166--3108237 Score: 90
Period size: 30 Copynumber: 2.3 Consensus size: 29
3108156 TTGTTTTATT
3108166 TATATATTATTATATATTATAGTATATATACA
1 TATATATTATTATAT-TTAT-GT-TATATACA
**
3108198 TATATATTAATTATATTTATGTTATATATT
1 TATATATT-ATTATATTTATGTTATATACA
3108228 TATATATTAT
1 TATATATTAT
3108238 ATAGATAGTA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
29 2 0.05
30 14 0.38
31 2 0.05
32 12 0.32
33 7 0.19
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (29 bp):
TATATATTATTATATTTATGTTATATACA
Found at i:3108260 original size:21 final size:21
Alignment explanation
Indices: 3108162--3108269 Score: 96
Period size: 21 Copynumber: 5.1 Consensus size: 21
3108152 AATATTGTTT
*
3108162 TATTTATATATTAT-TATATAT
1 TATTTATAT-TTATATATATAG
* * * *
3108183 TATAGTATATATACATATATAT
1 TAT-TTATATTTATATATATAG
* *
3108205 TAATTATATTTATGT-TATA-
1 TATTTATATTTATATATATAG
*
3108224 TATTTATATATTATATAGATAG
1 TATTTATAT-TTATATATATAG
3108246 TATTTATATTTATATATATAG
1 TATTTATATTTATATATATAG
3108267 TAT
1 TAT
3108270 AATATTTTTT
Statistics
Matches: 70, Mismatches: 12, Indels: 10
0.76 0.13 0.11
Matches are distributed among these distances:
19 8 0.11
20 9 0.13
21 30 0.43
22 23 0.33
ACGTcount: A:0.40, C:0.01, G:0.05, T:0.55
Consensus pattern (21 bp):
TATTTATATTTATATATATAG
Found at i:3108321 original size:18 final size:17
Alignment explanation
Indices: 3108302--3108366 Score: 59
Period size: 16 Copynumber: 4.1 Consensus size: 17
3108292 CATATATATA
3108302 TATTATATTTATTTTA-
1 TATTATATTTATTTTAT
* **
3108318 TA-TAT-TGTAAAT-AT
1 TATTATATTTATTTTAT
3108332 TATTATATTTATTATTAT
1 TATTATATTTATT-TTAT
3108350 TATT-TATTTATTTTAT
1 TATTATATTTATTTTAT
3108366 T
1 T
3108367 TTCTGGTCCA
Statistics
Matches: 38, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
13 1 0.03
14 6 0.16
15 6 0.16
16 10 0.26
17 9 0.24
18 6 0.16
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (17 bp):
TATTATATTTATTTTAT
Found at i:3110872 original size:449 final size:452
Alignment explanation
Indices: 3110018--3110923 Score: 1337
Period size: 449 Copynumber: 2.0 Consensus size: 452
3110008 CCTTGATAAA
* * *
3110018 TTACAATGCCACGTAATCATATTATCATCCTTACTTCATCAAGTCAAATATGAAGAAATATATTC
1 TTACAATGCCACATAATCATATCATCATCCTTACATCATCAAGTCAAATAT--AGAAATATATTC
* * * *
3110083 ATCTTTTTATAACTTTATCCTTGTAGTTTTCCCAAATTTACAATCTTGCCATCTTAATCTAACGG
64 ATCTTTTTACAACATTACCCTTGTAGTTTTCCCAAATTTACAATCTTGCCATCTTAATCCAACGG
**
3110148 TTCCGATTTAACATGAAGAAACAACTTATGTACAATAGTTCATGTTAAATTCTACAAATAAAAAA
129 TTCCGATTTAACATGAAGAAACAACTTAAATACAATAGTTCATGTTAAATTCTACAAATAAAAAA
* *
3110213 TATGGAAATGACATATTAACCTTTTCCTATTATCCTTAACATTTCTCAAAAATCTGATCCGATCC
194 TACGGAAATGACATATTAACCTTTTCCTATTATCCTTAACATTTCTCAAAAA--T-ATCCAATCC
* *
3110278 GATCCGATTATCTGAATTTTTTCTCGAACTTTATCGCTTTATAGCCTTTTATACACATTCCGAAT
256 GATCCGATTATCTGAATTTTTTCTCGAACTTTATCGCTTTATAGCCTTTTATACACAATACGAAT
* * * *
3110343 CAAAAATCTAAAACCCACAAAAATATCATTCTTGGGTGAAATATTCATTTACGGGGCCAAAATAC
321 AAAAAATCTAAAACACACAAAAACATCATTCTTGGGTGAAATATTCATTTACGGGGACAAAATAC
*
3110408 ATAACTTTTAAAAATTACACTTTTG-TTCCTAAACTTTTCCAAATTTTATACTTTGGACACTAAT
386 ATAACTTTTAAAAATTACAC-TTTGATTCCTAAACTTTTCCAAAATTTATAC-TTGGACACTAAT
3110472 CTTT
449 CTTT
3110476 TTACAATGCCACATAATCATATCATCATCCTTACATCATCAAGTCAAATAT-G-AATATATTCAT
1 TTACAATGCCACATAATCATATCATCATCCTTACATCATCAAGTCAAATATAGAAATATATTCAT
** * *
3110539 CTTTTTACAACATTACCCTTGTAGTTTTCCTGAATTTACAATCTTGCTATTTTAATCCAACGG-T
66 CTTTTTACAACATTACCCTTGTAGTTTTCCCAAATTTACAATCTTGCCATCTTAATCCAACGGTT
*
3110603 CCGATTTAACATGAA-AAATCAACTTAAATACAATAGTTCATGTT-AATTCTATAAATAAAAAAG
131 CCGATTTAACATGAAGAAA-CAACTTAAATACAATAGTTCATGTTAAATTCTACAAAT-AAAAA-
* *
3110666 ATACGGAAATGACATATTAACCTTTTCCTATTATCCTTCAGCATTTCTC-AAAA-ATCCAATTCG
193 ATACGGAAATGACATATTAACCTTTTCCTATTATCCTT-AACATTTCTCAAAAATATCCAATCCG
* *
3110729 ATCCGATTATCTGAA-TTTTTCTTGAACTTTATCGCTTTATAGCCTTTTATACA-AATACTAATA
257 ATCCGATTATCTGAATTTTTTCTCGAACTTTATCGCTTTATAGCCTTTTATACACAATACGAATA
* * * *
3110792 AAAAATCTGAAACATACGAAAACATCATTCTTAGGGTGAAATATTCATTTACGGTGACAAAATAC
322 AAAAATCTAAAACACACAAAAACATCATTCTT-GGGTGAAATATTCATTTACGGGGACAAAATAC
* *
3110857 ATGACTTTTAAAAATTACACTTTGATTCCTAAACTTTTCCAAAATTTATACTTGGCCACTAATCT
386 ATAACTTTTAAAAATTACACTTTGATTCCTAAACTTTTCCAAAATTTATACTTGGACACTAATCT
3110922 TT
451 TT
3110924 CAAAACGTAC
Statistics
Matches: 409, Mismatches: 33, Indels: 22
0.88 0.07 0.05
Matches are distributed among these distances:
448 52 0.13
449 111 0.27
450 23 0.06
452 14 0.03
453 44 0.11
454 107 0.26
455 10 0.02
458 48 0.12
ACGTcount: A:0.36, C:0.19, G:0.08, T:0.37
Consensus pattern (452 bp):
TTACAATGCCACATAATCATATCATCATCCTTACATCATCAAGTCAAATATAGAAATATATTCAT
CTTTTTACAACATTACCCTTGTAGTTTTCCCAAATTTACAATCTTGCCATCTTAATCCAACGGTT
CCGATTTAACATGAAGAAACAACTTAAATACAATAGTTCATGTTAAATTCTACAAATAAAAAATA
CGGAAATGACATATTAACCTTTTCCTATTATCCTTAACATTTCTCAAAAATATCCAATCCGATCC
GATTATCTGAATTTTTTCTCGAACTTTATCGCTTTATAGCCTTTTATACACAATACGAATAAAAA
ATCTAAAACACACAAAAACATCATTCTTGGGTGAAATATTCATTTACGGGGACAAAATACATAAC
TTTTAAAAATTACACTTTGATTCCTAAACTTTTCCAAAATTTATACTTGGACACTAATCTTT
Found at i:3114153 original size:13 final size:15
Alignment explanation
Indices: 3114122--3114158 Score: 60
Period size: 13 Copynumber: 2.6 Consensus size: 15
3114112 AATTTTTTTT
3114122 AATATTTTTACATAA
1 AATATTTTTACATAA
3114137 AATATTTTTA-A-AA
1 AATATTTTTACATAA
3114150 AATATTTTT
1 AATATTTTT
3114159 TCACATAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 11 0.50
14 1 0.05
15 10 0.45
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (15 bp):
AATATTTTTACATAA
Found at i:3115424 original size:25 final size:25
Alignment explanation
Indices: 3115381--3115432 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
3115371 AAAACGAAAT
*
3115381 AAAAATTAAATATTATATGATTTTAA
1 AAAAATTAAATATTATATG-TATTAA
3115407 AAAAATTAAA-AGTT-TATGTATTAA
1 AAAAATTAAATA-TTATATGTATTAA
3115431 AA
1 AA
3115433 TGAAATAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 7 0.29
25 5 0.21
26 12 0.50
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (25 bp):
AAAAATTAAATATTATATGTATTAA
Found at i:3117333 original size:29 final size:29
Alignment explanation
Indices: 3117268--3117326 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
3117258 TGTCATCATA
3117268 TTCTATCAAAAAAAAAAAAAAAATTATCC
1 TTCTATCAAAAAAAAAAAAAAAATTATCC
3117297 TTCTATCAAAAAAAAAAAAAAAATTATCC
1 TTCTATCAAAAAAAAAAAAAAAATTATCC
3117326 T
1 T
3117327 GTCATCATGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.61, C:0.14, G:0.00, T:0.25
Consensus pattern (29 bp):
TTCTATCAAAAAAAAAAAAAAAATTATCC
Found at i:3119403 original size:37 final size:37
Alignment explanation
Indices: 3119353--3119426 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
3119343 TGATTTGCAT
3119353 GTTTAATATATTCTTTTATTTGAAGATGCCACTGCTA
1 GTTTAATATATTCTTTTATTTGAAGATGCCACTGCTA
*
3119390 GTTTAATATATTCTTTTATTTGAAGATGCCATTGCTA
1 GTTTAATATATTCTTTTATTTGAAGATGCCACTGCTA
3119427 ATATTTCTTG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.27, C:0.12, G:0.14, T:0.47
Consensus pattern (37 bp):
GTTTAATATATTCTTTTATTTGAAGATGCCACTGCTA
Found at i:3139881 original size:9 final size:10
Alignment explanation
Indices: 3139858--3139883 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
3139848 TTTCTTTTCT
3139858 TTTTTTCAAA
1 TTTTTTCAAA
3139868 TTTTTTCAAA
1 TTTTTTCAAA
3139878 TTTTTT
1 TTTTTT
3139884 ATTTTTTACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (10 bp):
TTTTTTCAAA
Found at i:3140862 original size:17 final size:17
Alignment explanation
Indices: 3140840--3140898 Score: 66
Period size: 17 Copynumber: 3.4 Consensus size: 17
3140830 TGAAAACATA
*
3140840 TAATGAGCTAGTTTAAT
1 TAATGAACTAGTTTAAT
*
3140857 TAATGAACTACTTTAAT
1 TAATGAACTAGTTTAAT
*
3140874 TAGTGAACTAGCTTT-AT
1 TAATGAACTAG-TTTAAT
3140891 TGAATGAA
1 T-AATGAA
3140899 AGAGGATACT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
17 27 0.77
18 8 0.23
ACGTcount: A:0.37, C:0.08, G:0.15, T:0.39
Consensus pattern (17 bp):
TAATGAACTAGTTTAAT
Found at i:3141036 original size:20 final size:20
Alignment explanation
Indices: 3140998--3141036 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
3140988 CAACTTAATA
* *
3140998 TCATGCAAATTTATTAACAC
1 TCATGCAAATTCATGAACAC
3141018 TCATGCAAATTCATGAACA
1 TCATGCAAATTCATGAACA
3141037 AGTAAAAGAT
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:0.41, C:0.21, G:0.08, T:0.31
Consensus pattern (20 bp):
TCATGCAAATTCATGAACAC
Found at i:3147714 original size:20 final size:20
Alignment explanation
Indices: 3147685--3147723 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
3147675 TATCCACCAC
*
3147685 ATGCAACTATATGCTCCTAA
1 ATGCAACTATATGATCCTAA
*
3147705 ATGCATCTATATGATCCTA
1 ATGCAACTATATGATCCTA
3147724 TATGAGCTCT
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:0.33, C:0.23, G:0.10, T:0.33
Consensus pattern (20 bp):
ATGCAACTATATGATCCTAA
Found at i:3158226 original size:11 final size:11
Alignment explanation
Indices: 3158212--3158240 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
3158202 TTTTCTTTTC
3158212 TTTTTTTCAAT
1 TTTTTTTCAAT
3158223 TTTTTTTCAAT
1 TTTTTTTCAAT
3158234 TTTTTTT
1 TTTTTTT
3158241 ACTAACCTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.14, C:0.07, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTTTTCAAT
Found at i:3159222 original size:17 final size:17
Alignment explanation
Indices: 3159200--3159258 Score: 66
Period size: 17 Copynumber: 3.4 Consensus size: 17
3159190 TGAAAACATA
*
3159200 TAATGAGCTAGTTTAAT
1 TAATGAACTAGTTTAAT
*
3159217 TAATGAACTACTTTAAT
1 TAATGAACTAGTTTAAT
*
3159234 TAGTGAACTAGCTTT-AT
1 TAATGAACTAG-TTTAAT
3159251 TGAATGAA
1 T-AATGAA
3159259 AGAGGATACT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
17 27 0.77
18 8 0.23
ACGTcount: A:0.37, C:0.08, G:0.15, T:0.39
Consensus pattern (17 bp):
TAATGAACTAGTTTAAT
Found at i:3160234 original size:20 final size:20
Alignment explanation
Indices: 3160205--3160243 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
3160195 TTTCCACCAC
*
3160205 ATGCAACTATATGCTCCTAA
1 ATGCAACTATATGATCCTAA
*
3160225 ATGCATCTATATGATCCTA
1 ATGCAACTATATGATCCTA
3160244 TATGAGCTCT
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:0.33, C:0.23, G:0.10, T:0.33
Consensus pattern (20 bp):
ATGCAACTATATGATCCTAA
Found at i:3170862 original size:30 final size:30
Alignment explanation
Indices: 3170804--3170863 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
3170794 ATTAGAGAAG
* *
3170804 AGATGGTTGAAGAATGATCGCCTCTTCTTT
1 AGATGGTTGAAGAATGATCACATCTTCTTT
* * *
3170834 AGATGGTTGAAGAGTGGTCACATTTTCTTT
1 AGATGGTTGAAGAATGATCACATCTTCTTT
3170864 TTCTCTTTCT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.23, C:0.13, G:0.25, T:0.38
Consensus pattern (30 bp):
AGATGGTTGAAGAATGATCACATCTTCTTT
Found at i:3178411 original size:23 final size:23
Alignment explanation
Indices: 3178381--3178494 Score: 93
Period size: 23 Copynumber: 5.3 Consensus size: 23
3178371 TCGAGGGTTC
3178381 TATGTGGTCCTTCGGGACAAAAT
1 TATGTGGTCCTTCGGGACAAAAT
3178404 TATGTGG----TCGGGACAAAAT
1 TATGTGGTCCTTCGGGACAAAAT
* * **
3178423 TATGTGGTCCTTCGGCATAAACC
1 TATGTGGTCCTTCGGGACAAAAT
* *
3178446 TATGTGGTCTTTGGGGAC-AAA-
1 TATGTGGTCCTTCGGGACAAAAT
3178467 TATGTGG-CACTTCGGTG-C-AAAT
1 TATGTGGTC-CTTCGG-GACAAAAT
3178489 TATGTG
1 TATGTG
3178495 AGCTGTGGCA
Statistics
Matches: 73, Mismatches: 11, Indels: 15
0.74 0.11 0.15
Matches are distributed among these distances:
19 19 0.26
20 1 0.01
21 15 0.21
22 9 0.12
23 29 0.40
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.32
Consensus pattern (23 bp):
TATGTGGTCCTTCGGGACAAAAT
Found at i:3178416 original size:19 final size:19
Alignment explanation
Indices: 3178392--3178431 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
3178382 ATGTGGTCCT
3178392 TCGGGACAAAATTATGTGG
1 TCGGGACAAAATTATGTGG
3178411 TCGGGACAAAATTATGTGG
1 TCGGGACAAAATTATGTGG
3178430 TC
1 TC
3178432 CTTCGGCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.30, C:0.12, G:0.30, T:0.28
Consensus pattern (19 bp):
TCGGGACAAAATTATGTGG
Found at i:3185992 original size:21 final size:22
Alignment explanation
Indices: 3185966--3186009 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
3185956 ATGAATAGTG
*
3185966 AGGGTATCGGTACAC-TGTAGC
1 AGGGTATCGATACACTTGTAGC
*
3185987 AGGGTATCGATACCCTTGTAGC
1 AGGGTATCGATACACTTGTAGC
3186009 A
1 A
3186010 TTCTGGAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (22 bp):
AGGGTATCGATACACTTGTAGC
Found at i:3186529 original size:44 final size:44
Alignment explanation
Indices: 3186477--3186591 Score: 221
Period size: 44 Copynumber: 2.6 Consensus size: 44
3186467 TACTCACTAT
3186477 TTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTGCCA
1 TTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTGCCA
*
3186521 TTATTCCATAATCTCGTAAGCTTATTTTACCAATATACTTGCCA
1 TTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTGCCA
3186565 TTATTCCATAAGCTCGTAAGCTTATTT
1 TTATTCCATAAGCTCGTAAGCTTATTT
3186592 GCATGCTTAC
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
44 69 1.00
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.41
Consensus pattern (44 bp):
TTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTGCCA
Found at i:3186745 original size:40 final size:40
Alignment explanation
Indices: 3186666--3186745 Score: 115
Period size: 40 Copynumber: 2.0 Consensus size: 40
3186656 ATAGGAGTCA
* * *
3186666 AATATTGCACCGAAGTGCTGAGGTCGAGCTTTGCTCACCT
1 AATAATGCACCGAAGTGCTGAGGTCGAGCTTTACCCACCT
* *
3186706 AATAATGCACCGTAGTGCTGAGGTCGGGCTTTACCCACCT
1 AATAATGCACCGAAGTGCTGAGGTCGAGCTTTACCCACCT
3186746 TGTACACCGT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
AATAATGCACCGAAGTGCTGAGGTCGAGCTTTACCCACCT
Found at i:3193502 original size:2 final size:2
Alignment explanation
Indices: 3193495--3193534 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
3193485 ATTACACTTA
3193495 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3193535 TGGTTTGTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3198188 original size:23 final size:23
Alignment explanation
Indices: 3198155--3198231 Score: 75
Period size: 23 Copynumber: 3.3 Consensus size: 23
3198145 TCGAGGGTTC
* *
3198155 TATGTGATCCTTCGGGACAAAAT
1 TATGTGGTCCTTCGGGACAAACT
**
3198178 TATGTGGTCCTTCAAGACAAACCT
1 TATGTGGTCCTTCGGGACAAA-CT
* * *
3198202 T-TGTAGTCCTTTGGGACAAACC
1 TATGTGGTCCTTCGGGACAAACT
3198224 TATGTGGT
1 TATGTGGT
3198232 ACGTCAGGAA
Statistics
Matches: 42, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
22 2 0.05
23 38 0.90
24 2 0.05
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.32
Consensus pattern (23 bp):
TATGTGGTCCTTCGGGACAAACT
Found at i:3209416 original size:29 final size:29
Alignment explanation
Indices: 3209359--3209460 Score: 111
Period size: 29 Copynumber: 3.6 Consensus size: 29
3209349 GTCAATCATT
* *
3209359 TTACAAAAATAGCACCCTTTTT-TAA-TAA
1 TTACCAAAATAGCA-CCTTTTTCAAATTAA
*
3209387 TTACCAAAATAACACCTTTTTCAAATTAA
1 TTACCAAAATAGCACCTTTTTCAAATTAA
* * *
3209416 TTCCCAAAATAGCACCTATTTCGAATTAA
1 TTACCAAAATAGCACCTTTTTCAAATTAA
3209445 TT-CCTAAAATAGCACC
1 TTACC-AAAATAGCACC
3209461 CGATCAACGG
Statistics
Matches: 64, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
27 7 0.11
28 16 0.25
29 41 0.64
ACGTcount: A:0.41, C:0.23, G:0.04, T:0.32
Consensus pattern (29 bp):
TTACCAAAATAGCACCTTTTTCAAATTAA
Found at i:3209501 original size:13 final size:13
Alignment explanation
Indices: 3209497--3209521 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3209487 GTCAACGGGT
3209497 CGGGTCGGGTCAA
1 CGGGTCGGGTCAA
3209510 CGGGTCGGGTCA
1 CGGGTCGGGTCA
3209522 TTCCGGTCAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.24, G:0.48, T:0.16
Consensus pattern (13 bp):
CGGGTCGGGTCAA
Found at i:3209518 original size:18 final size:18
Alignment explanation
Indices: 3209469--3209520 Score: 88
Period size: 18 Copynumber: 2.9 Consensus size: 18
3209459 CCCGATCAAC
*
3209469 GGTCAAC-GGTCGGATCG
1 GGTCAACGGGTCGGGTCG
3209486 GGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
3209504 GGTCAACGGGTCGGGTC
1 GGTCAACGGGTCGGGTC
3209521 ATTCCGGTCA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
17 7 0.21
18 26 0.79
ACGTcount: A:0.13, C:0.23, G:0.46, T:0.17
Consensus pattern (18 bp):
GGTCAACGGGTCGGGTCG
Found at i:3211713 original size:17 final size:19
Alignment explanation
Indices: 3211680--3211718 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
3211670 TTTTACAACT
3211680 TATAGAACATTAAATA-TAA
1 TATAGAACA-TAAATATTAA
3211699 TATAGAACA-AAATATTAA
1 TATAGAACATAAATATTAA
3211717 TA
1 TA
3211719 ATACAGATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 5 0.26
18 5 0.26
19 9 0.47
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.31
Consensus pattern (19 bp):
TATAGAACATAAATATTAA
Found at i:3212156 original size:21 final size:21
Alignment explanation
Indices: 3212127--3212170 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
3212117 AATTAACATG
3212127 AATATATTCTCGTAAAACAATA
1 AATATATTCT-GTAAAACAATA
* *
3212149 AATA-ATTCTTTAAAACCATA
1 AATATATTCTGTAAAACAATA
3212169 AA
1 AA
3212171 CAGAAATACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 11 0.55
21 5 0.25
22 4 0.20
ACGTcount: A:0.52, C:0.14, G:0.02, T:0.32
Consensus pattern (21 bp):
AATATATTCTGTAAAACAATA
Found at i:3213059 original size:29 final size:29
Alignment explanation
Indices: 3213007--3213161 Score: 147
Period size: 29 Copynumber: 5.4 Consensus size: 29
3212997 CCATTTTACA
* *
3213007 AAAATAACACCCTTTTT-TAA-TAATTACC
1 AAAATAACA-CCTTTTTCGAATTAATTCCC
*
3213035 AAAATAACACCTTTTTCAAATTAATTCCC
1 AAAATAACACCTTTTTCGAATTAATTCCC
**
3213064 AAAATAGA-ACCCATTTCGAATTAATTCCC
1 AAAATA-ACACCTTTTTCGAATTAATTCCC
* * *
3213093 AAAATAGCACTCATTTT-GCATTAATTCCC
1 AAAATAACAC-CTTTTTCGAATTAATTCCC
* **
3213122 AAAATAGCACCCATTTCGAATTAATTCCC
1 AAAATAACACCTTTTTCGAATTAATTCCC
*
3213151 AAAATATCACC
1 AAAATAACACC
3213162 CGGTCAACGG
Statistics
Matches: 108, Mismatches: 13, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
27 7 0.06
28 15 0.14
29 81 0.75
30 5 0.05
ACGTcount: A:0.41, C:0.25, G:0.04, T:0.31
Consensus pattern (29 bp):
AAAATAACACCTTTTTCGAATTAATTCCC
Found at i:3213162 original size:29 final size:29
Alignment explanation
Indices: 3213027--3213162 Score: 182
Period size: 29 Copynumber: 4.7 Consensus size: 29
3213017 CCTTTTTTAA
* * ** *
3213027 TAATTACCAAAATAACACCTTTTTCAAAT
1 TAATTCCCAAAATAGCACCCATTTCGAAT
*
3213056 TAATTCCCAAAATAGAACCCATTTCGAAT
1 TAATTCCCAAAATAGCACCCATTTCGAAT
* * *
3213085 TAATTCCCAAAATAGCACTCATTTTGCAT
1 TAATTCCCAAAATAGCACCCATTTCGAAT
3213114 TAATTCCCAAAATAGCACCCATTTCGAAT
1 TAATTCCCAAAATAGCACCCATTTCGAAT
*
3213143 TAATTCCCAAAATATCACCC
1 TAATTCCCAAAATAGCACCC
3213163 GGTCAACGGT
Statistics
Matches: 93, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 93 1.00
ACGTcount: A:0.40, C:0.26, G:0.04, T:0.30
Consensus pattern (29 bp):
TAATTCCCAAAATAGCACCCATTTCGAAT
Found at i:3213186 original size:18 final size:17
Alignment explanation
Indices: 3213162--3213266 Score: 131
Period size: 18 Copynumber: 6.1 Consensus size: 17
3213152 AAATATCACC
*
3213162 CGGTCAACGGTTCGGGT
1 CGGTCAACGGGTCGGGT
*
3213179 CGGGTCAACGGGACGGGT
1 C-GGTCAACGGGTCGGGT
*
3213197 CGGTCAACGGGTCAGGT
1 CGGTCAACGGGTCGGGT
*
3213214 CAGGTCAATGGGTC-GGT
1 C-GGTCAACGGGTCGGGT
3213231 CGGTCAACGGGTCGGGT
1 CGGTCAACGGGTCGGGT
*
3213248 CGGGTCAACGGGTCAGGT
1 C-GGTCAACGGGTCGGGT
3213266 C
1 C
3213267 ATTCCGGTCA
Statistics
Matches: 77, Mismatches: 7, Indels: 7
0.85 0.08 0.08
Matches are distributed among these distances:
16 11 0.14
17 24 0.31
18 42 0.55
ACGTcount: A:0.15, C:0.23, G:0.44, T:0.18
Consensus pattern (17 bp):
CGGTCAACGGGTCGGGT
Found at i:3215490 original size:17 final size:19
Alignment explanation
Indices: 3215457--3215495 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
3215447 TTTTACAACT
3215457 TATAGAACATTAAATA-TAA
1 TATAGAACA-TAAATATTAA
3215476 TATAGAACA-AAATATTAA
1 TATAGAACATAAATATTAA
3215494 TA
1 TA
3215496 ATACAGATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 5 0.26
18 5 0.26
19 9 0.47
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.31
Consensus pattern (19 bp):
TATAGAACATAAATATTAA
Found at i:3216848 original size:29 final size:30
Alignment explanation
Indices: 3216812--3216992 Score: 132
Period size: 29 Copynumber: 6.4 Consensus size: 30
3216802 CATTTTACAG
* *
3216812 AAATAGCACCCTTTTTTTAA-TAATTACCA
1 AAATAGCACCCATTTTTGAATTAATTACCA
*
3216841 AAATAGCA-CCATTTTTGAATTAATTCCCA
1 AAATAGCACCCATTTTTGAATTAATTACCA
* ** *
3216870 AAATAGCACCTA-TTTCAAATTAATT-CTCT
1 AAATAGCACCCATTTTTGAATTAATTAC-CA
*
3216899 AAATAG----CA-TTTTGAATTAATTTCCA
1 AAATAGCACCCATTTTTGAATTAATTACCA
* *
3216924 AAATAGCACCCA-TTTCGAATTAATTCCCA
1 AAATAGCACCCATTTTTGAATTAATTACCA
* * * *
3216953 AAATAACACCTA-TTTCGAATTAATTCCCA
1 AAATAGCACCCATTTTTGAATTAATTACCA
* *
3216982 CAATATCACCC
1 AAATAGCACCC
3216993 GGTCAACGGT
Statistics
Matches: 126, Mismatches: 18, Indels: 16
0.79 0.11 0.10
Matches are distributed among these distances:
25 19 0.15
26 1 0.01
28 10 0.08
29 94 0.75
30 2 0.02
ACGTcount: A:0.39, C:0.23, G:0.05, T:0.34
Consensus pattern (30 bp):
AAATAGCACCCATTTTTGAATTAATTACCA
Found at i:3216917 original size:54 final size:55
Alignment explanation
Indices: 3216853--3216992 Score: 174
Period size: 54 Copynumber: 2.5 Consensus size: 55
3216843 ATAGCACCAT
* * * *
3216853 TTTTGAATTAATTCCCAAAATAGCACCTATTTCAAATTAATTCTCTAAATAGCA-
1 TTTTGAATTAATTCCCAAAATAGCACCCATTTCAAATTAATTCCCAAAATAACAC
* *
3216907 TTTTGAATTAATTTCCAAAATAGCACCCATTTCGAATTAATTCCCAAAATAACACC
1 TTTTGAATTAATTCCCAAAATAGCACCCATTTCAAATTAATTCCCAAAATAACA-C
* *
3216963 TATTTCGAATTAATTCCCACAATATCACCC
1 T-TTT-GAATTAATTCCCAAAATAGCACCC
3216993 GGTCAACGGT
Statistics
Matches: 73, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
54 48 0.66
56 1 0.01
57 3 0.04
58 21 0.29
ACGTcount: A:0.38, C:0.23, G:0.05, T:0.34
Consensus pattern (55 bp):
TTTTGAATTAATTCCCAAAATAGCACCCATTTCAAATTAATTCCCAAAATAACAC
Found at i:3219974 original size:20 final size:20
Alignment explanation
Indices: 3219944--3219989 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
3219934 CGGTGCTAGT
3219944 GAACC-GCTTTGAACCGTTC
1 GAACCGGCTTTGAACCGTTC
3219963 GAACCGGCTTTGAACCGTTC
1 GAACCGGCTTTGAACCGTTC
3219983 GAACCGG
1 GAACCGG
3219990 ACCGTGAACC
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.22, C:0.30, G:0.26, T:0.22
Consensus pattern (20 bp):
GAACCGGCTTTGAACCGTTC
Found at i:3220146 original size:17 final size:17
Alignment explanation
Indices: 3220120--3220183 Score: 75
Period size: 17 Copynumber: 4.1 Consensus size: 17
3220110 TAGCACGGCA
*
3220120 GGTTCGCTGACCGGTCC
1 GGTTCTCTGACCGGTCC
*
3220137 GGTTCTCTGACCGGTTC
1 GGTTCTCTGACCGGTCC
3220154 -G---T-TGACCGGTCC
1 GGTTCTCTGACCGGTCC
3220166 GGTTCTCTGACCGGTCC
1 GGTTCTCTGACCGGTCC
3220183 G
1 G
3220184 ATTATAAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
12 9 0.23
13 2 0.05
16 2 0.05
17 26 0.67
ACGTcount: A:0.06, C:0.33, G:0.33, T:0.28
Consensus pattern (17 bp):
GGTTCTCTGACCGGTCC
Found at i:3220152 original size:29 final size:29
Alignment explanation
Indices: 3220120--3220180 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
3220110 TAGCACGGCA
3220120 GGTTCGCTGACCGGTCCGGTTCTCTGACC
1 GGTTCGCTGACCGGTCCGGTTCTCTGACC
*
3220149 GGTTCGTTGACCGGTCCGGTTCTCTGACC
1 GGTTCGCTGACCGGTCCGGTTCTCTGACC
3220178 GGT
1 GGT
3220181 CCGATTATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.07, C:0.31, G:0.33, T:0.30
Consensus pattern (29 bp):
GGTTCGCTGACCGGTCCGGTTCTCTGACC
Found at i:3220939 original size:24 final size:23
Alignment explanation
Indices: 3220908--3220955 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
3220898 TATTTTTTTA
*
3220908 TATTATAATATTACATATTTAAT
1 TATTATAATATTACATATTAAAT
* *
3220931 TATTAATAATTTTATATATTAAAT
1 TATT-ATAATATTACATATTAAAT
3220955 T
1 T
3220956 TAACTAATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (23 bp):
TATTATAATATTACATATTAAAT
Found at i:3224985 original size:9 final size:10
Alignment explanation
Indices: 3224960--3224993 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
3224950 GCAGCTGGAA
3224960 AACCGGTCTG
1 AACCGGTCTG
*
3224970 AACCGGTTTG
1 AACCGGTCTG
3224980 -ACCGGTCTG
1 AACCGGTCTG
3224989 AACCG
1 AACCG
3224994 ATCTTACCCG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
9 8 0.38
10 13 0.62
ACGTcount: A:0.21, C:0.29, G:0.29, T:0.21
Consensus pattern (10 bp):
AACCGGTCTG
Found at i:3225018 original size:14 final size:14
Alignment explanation
Indices: 3224999--3225026 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
3224989 AACCGATCTT
3224999 ACCCGACCCGACCG
1 ACCCGACCCGACCG
3225013 ACCCGACCCGACCG
1 ACCCGACCCGACCG
3225027 TTGACCATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.57, G:0.21, T:0.00
Consensus pattern (14 bp):
ACCCGACCCGACCG
Found at i:3235136 original size:16 final size:16
Alignment explanation
Indices: 3235111--3235144 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
3235101 TAGGATATAT
*
3235111 ACCCACTAAATGAGTA
1 ACCCAATAAATGAGTA
3235127 ACCCAATAAATGAGTA
1 ACCCAATAAATGAGTA
3235143 AC
1 AC
3235145 ACATTAACCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.47, C:0.24, G:0.12, T:0.18
Consensus pattern (16 bp):
ACCCAATAAATGAGTA
Found at i:3235282 original size:13 final size:13
Alignment explanation
Indices: 3235266--3235292 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3235256 CATTAAATCA
3235266 TAAAATTAATTTT
1 TAAAATTAATTTT
3235279 TAAAATTAATTTT
1 TAAAATTAATTTT
3235292 T
1 T
3235293 TGTCAAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TAAAATTAATTTT
Found at i:3236330 original size:17 final size:17
Alignment explanation
Indices: 3236308--3236345 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
3236298 CCCGATTACT
3236308 GGGTACCCGCAAAATCC
1 GGGTACCCGCAAAATCC
* *
3236325 GGGTACCCGTAACATCC
1 GGGTACCCGCAAAATCC
3236342 GGGT
1 GGGT
3236346 CGGGGCCGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.24, C:0.32, G:0.29, T:0.16
Consensus pattern (17 bp):
GGGTACCCGCAAAATCC
Found at i:3237581 original size:3 final size:3
Alignment explanation
Indices: 3237573--3237625 Score: 97
Period size: 3 Copynumber: 17.3 Consensus size: 3
3237563 AAAAGACAAT
3237573 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGAA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG-A
3237619 AGA AGA A
1 AGA AGA A
3237626 AGGGGGTGAC
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 46 0.94
4 3 0.06
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:3240465 original size:4 final size:4
Alignment explanation
Indices: 3240456--3240628 Score: 82
Period size: 4 Copynumber: 42.0 Consensus size: 4
3240446 ATTTTGAATA
* * * **
3240456 ATTT ATTT ATTT TTTT AATT ATTTT GTTT GATTT ATTT ATTT ATTT -TAA
1 ATTT ATTT ATTT ATTT ATTT A-TTT ATTT -ATTT ATTT ATTT ATTT ATTT
** **
3240505 ATTT ATTT ATTT ATTT CAAATTT ATGC ATTT ATTT ATTT A-AA ATTT ATTT
1 ATTT ATTT ATTT ATTT ---ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
* * * * * * *
3240555 ATTT AGTT AGTT AGTT AGTT ATTT CAAAATT ATTT ATTT ATTT GTTT GTTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ---ATTT ATTT ATTT ATTT ATTT ATTT
** *
3240606 -TAA AATT ATTT ATTT ATTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT
3240629 GAAGGGATAT
Statistics
Matches: 129, Mismatches: 29, Indels: 22
0.72 0.16 0.12
Matches are distributed among these distances:
3 3 0.02
4 114 0.88
5 5 0.04
7 7 0.05
ACGTcount: A:0.28, C:0.02, G:0.05, T:0.65
Consensus pattern (4 bp):
ATTT
Found at i:3240481 original size:30 final size:30
Alignment explanation
Indices: 3240427--3240508 Score: 89
Period size: 30 Copynumber: 2.8 Consensus size: 30
3240417 TAATTTTTTT
* *
3240427 ATTTATTGATTTGTTTT-ATATTTTGAATA
1 ATTTATTTATTTATTTTAATATTTTGAATA
** *
3240456 ATTTATTTATTT-TTTTAATTATTTTGTTTG
1 ATTTATTTATTTATTTTAA-TATTTTGAATA
3240486 ATTTATTTATTTATTTTAA-ATTT
1 ATTTATTTATTTATTTTAATATTT
3240509 ATTTATTTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
28 4 0.09
29 16 0.35
30 20 0.43
31 6 0.13
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (30 bp):
ATTTATTTATTTATTTTAATATTTTGAATA
Found at i:3240510 original size:19 final size:19
Alignment explanation
Indices: 3240486--3240597 Score: 104
Period size: 19 Copynumber: 5.8 Consensus size: 19
3240476 ATTTTGTTTG
*
3240486 ATTTATTTATTTATTTTAA
1 ATTTATTTATTTATTTCAA
3240505 ATTTATTTATTTATTTCAA
1 ATTTATTTATTTATTTCAA
*
3240524 ATTTATGCATTTATTTATTTAAA
1 A-TT-T--ATTTATTTATTTCAA
*
3240547 ATTTATTTATTTAGTT---
1 ATTTATTTATTTATTTCAA
* * *
3240563 AGTTAGTTAGTTATTTCAA
1 ATTTATTTATTTATTTCAA
*
3240582 AATTATTTATTTATTT
1 ATTTATTTATTTATTT
3240598 GTTTGTTTTA
Statistics
Matches: 76, Mismatches: 10, Indels: 14
0.76 0.10 0.14
Matches are distributed among these distances:
16 12 0.16
19 43 0.57
20 2 0.03
21 2 0.03
22 2 0.03
23 15 0.20
ACGTcount: A:0.31, C:0.03, G:0.04, T:0.62
Consensus pattern (19 bp):
ATTTATTTATTTATTTCAA
Found at i:3241519 original size:6 final size:6
Alignment explanation
Indices: 3241465--3241533 Score: 50
Period size: 6 Copynumber: 11.7 Consensus size: 6
3241455 ATGCACATAT
* * ** * * * * *
3241465 ATTATC CTTATC ATCATC AACATC ATTATC CTTATT ATTGTT ATCATC
1 ATTATC ATTATC ATTATC ATTATC ATTATC ATTATC ATTATC ATTATC
3241513 ATTATC ATT-TC ATTATC ATTA
1 ATTATC ATTATC ATTATC ATTA
3241534 ATCCATCTTA
Statistics
Matches: 48, Mismatches: 14, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
5 5 0.10
6 43 0.90
ACGTcount: A:0.30, C:0.20, G:0.01, T:0.48
Consensus pattern (6 bp):
ATTATC
Found at i:3241720 original size:23 final size:23
Alignment explanation
Indices: 3241694--3241777 Score: 82
Period size: 23 Copynumber: 3.7 Consensus size: 23
3241684 TATAAAATTG
3241694 TCCCGAAGGACCACATAGAAATA
1 TCCCGAAGGACCACATAGAAATA
* * * *
3241717 TCCCAAATGACCACAT--ATATG
1 TCCCGAAGGACCACATAGAAATA
* *
3241738 TCCCGAAGGACCACATAGAATTC
1 TCCCGAAGGACCACATAGAAATA
**
3241761 TCCTTAAGGACCACATA
1 TCCCGAAGGACCACATA
3241778 TATATTCCAA
Statistics
Matches: 48, Mismatches: 11, Indels: 4
0.76 0.17 0.06
Matches are distributed among these distances:
21 17 0.35
23 31 0.65
ACGTcount: A:0.38, C:0.29, G:0.14, T:0.19
Consensus pattern (23 bp):
TCCCGAAGGACCACATAGAAATA
Found at i:3241749 original size:21 final size:21
Alignment explanation
Indices: 3241692--3241859 Score: 106
Period size: 21 Copynumber: 7.8 Consensus size: 21
3241682 CATATAAAAT
*
3241692 TGTCCCGAAGGACCACATAGAAA
1 TGTCCCGAAGGACCACAT--ATA
* * *
3241715 TATCCCAAATGACCACATATA
1 TGTCCCGAAGGACCACATATA
*
3241736 TGTCCCGAAGGACCACATAGAA
1 TGTCCCGAAGGACCACATA-TA
*
3241758 T-TCTCCTTAAGGACCACATATA
1 TGTC-CC-GAAGGACCACATATA
* * * *
3241780 TATTCC-AATGGACCAAATATG
1 TGTCCCGAA-GGACCACATATA
* *
3241801 TGTCCCGAAGTACCGCATATA
1 TGTCCCGAAGGACCACATATA
* * **
3241822 TGTTCCAAAGGATTACATATA
1 TGTCCCGAAGGACCACATATA
*
3241843 TGTCCCCGAAGAACCAC
1 TGT-CCCGAAGGACCAC
3241860 GTAGAACCCT
Statistics
Matches: 108, Mismatches: 30, Indels: 15
0.71 0.20 0.10
Matches are distributed among these distances:
20 2 0.02
21 60 0.56
22 18 0.17
23 28 0.26
ACGTcount: A:0.36, C:0.26, G:0.15, T:0.23
Consensus pattern (21 bp):
TGTCCCGAAGGACCACATATA
Found at i:3241749 original size:44 final size:44
Alignment explanation
Indices: 3241692--3241780 Score: 133
Period size: 44 Copynumber: 2.0 Consensus size: 44
3241682 CATATAAAAT
*
3241692 TGTCCCGAAGGACCACATAGAAATATCCCAAATGACCACATATA
1 TGTCCCGAAGGACCACATAGAAATATCCCAAAGGACCACATATA
* * **
3241736 TGTCCCGAAGGACCACATAGAATTCTCCTTAAGGACCACATATA
1 TGTCCCGAAGGACCACATAGAAATATCCCAAAGGACCACATATA
3241780 T
1 T
3241781 ATTCCAATGG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.37, C:0.27, G:0.15, T:0.21
Consensus pattern (44 bp):
TGTCCCGAAGGACCACATAGAAATATCCCAAAGGACCACATATA
Found at i:3242190 original size:15 final size:16
Alignment explanation
Indices: 3242170--3242207 Score: 60
Period size: 15 Copynumber: 2.4 Consensus size: 16
3242160 TATGTAGCAT
3242170 ATATAGTCATAT-ATC
1 ATATAGTCATATAATC
*
3242185 ATATAGACATATAATC
1 ATATAGTCATATAATC
3242201 ATATAGT
1 ATATAGT
3242208 TCCTTGGCAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.45, C:0.11, G:0.08, T:0.37
Consensus pattern (16 bp):
ATATAGTCATATAATC
Found at i:3242854 original size:20 final size:21
Alignment explanation
Indices: 3242803--3242854 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
3242793 ACTTGTTAAT
* *
3242803 GGTATCGATACCCCTTTAATTA
1 GGTATCGATACCACTCT-ATTA
*
3242825 -GTATCAATACCACTCT-TTA
1 GGTATCGATACCACTCTATTA
3242844 GGTATCGATAC
1 GGTATCGATAC
3242855 TTCTTAAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
19 3 0.12
20 9 0.36
21 13 0.52
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.35
Consensus pattern (21 bp):
GGTATCGATACCACTCTATTA
Found at i:3246183 original size:23 final size:23
Alignment explanation
Indices: 3246157--3246205 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
3246147 TGAGTGGTAT
*
3246157 ATAAAATTGTCCCAAAGGACCAC
1 ATAAAAATGTCCCAAAGGACCAC
* * *
3246180 ATAAAAATGTCTCGAATGACCAC
1 ATAAAAATGTCCCAAAGGACCAC
3246203 ATA
1 ATA
3246206 TATGTACCGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.45, C:0.22, G:0.12, T:0.20
Consensus pattern (23 bp):
ATAAAAATGTCCCAAAGGACCAC
Found at i:3246525 original size:31 final size:30
Alignment explanation
Indices: 3246455--3246530 Score: 73
Period size: 31 Copynumber: 2.5 Consensus size: 30
3246445 CACAGCTTCT
* *
3246455 TATCATATAGCTCA-TGTAACATTTTCGTA
1 TATCACATAGCTCATTGTAACATTTTCATA
* * *
3246484 TATTCTCATAGCTCATTGTCATATTTTCATA
1 TA-TCACATAGCTCATTGTAACATTTTCATA
*
3246515 TGATCACATAGGTCAT
1 T-ATCACATAGCTCAT
3246531 ATCACAGAGA
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
29 2 0.05
30 10 0.27
31 24 0.65
32 1 0.03
ACGTcount: A:0.29, C:0.18, G:0.11, T:0.42
Consensus pattern (30 bp):
TATCACATAGCTCATTGTAACATTTTCATA
Found at i:3247680 original size:2 final size:2
Alignment explanation
Indices: 3247673--3247710 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
3247663 TGTCGTAAAT
3247673 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3247711 GTAGATTGAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3249597 original size:19 final size:19
Alignment explanation
Indices: 3249573--3249615 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
3249563 ATTAATGCTT
*
3249573 ACCTTTGGGACAGGTTAAG
1 ACCTTTGGGACAGGTTAAA
*
3249592 ACCTTTGGGACATGTTAAA
1 ACCTTTGGGACAGGTTAAA
3249611 ACCTT
1 ACCTT
3249616 ATTGGTTTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (19 bp):
ACCTTTGGGACAGGTTAAA
Found at i:3255146 original size:21 final size:20
Alignment explanation
Indices: 3255118--3255157 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
3255108 CATTGCATGA
*
3255118 ATTTATGGCTTCGACAAAAG
1 ATTTATGGCTTCAACAAAAG
3255138 ATTTCATGGCTTCAACAAAA
1 ATTT-ATGGCTTCAACAAAA
3255158 ACCTTGATGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.30
Consensus pattern (20 bp):
ATTTATGGCTTCAACAAAAG
Found at i:3269855 original size:22 final size:23
Alignment explanation
Indices: 3269805--3269848 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
3269795 TTAAATTTAT
*
3269805 AATTTTTTAGTTATTCGAACTGC
1 AATTTTTTAGTTAATCGAACTGC
3269828 AATTTTTTAGTTAATCGAACT
1 AATTTTTTAGTTAATCGAACT
3269849 CCGTTTTCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.48
Consensus pattern (23 bp):
AATTTTTTAGTTAATCGAACTGC
Found at i:3278095 original size:18 final size:19
Alignment explanation
Indices: 3278060--3278096 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
3278050 CACGGAATGT
3278060 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
3278080 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
3278097 GGATTACTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:3282902 original size:279 final size:279
Alignment explanation
Indices: 3282388--3283498 Score: 1744
Period size: 279 Copynumber: 4.0 Consensus size: 279
3282378 TCTTAGAATT
* *
3282388 ATCGTTAATTTTTTAACGAAATCAATAATAATATTATAAAAAATAAATATCACAATAAAAAATAA
1 ATCGTTAA-ATTTCAACGAAATCAATAATAATATTATAAAAAATAAATATCACAATAAAAAATAA
*
3282453 TAATAGTTTGATAAGTATTAAAATAATTGGATAAATTACATATTTAATACCTAAATTTTTATTTT
65 TAATAGTTTGATAAGTATTAAAATAATTGGATAAATTACATATTTAATACCTAAATTATTATTTT
* *
3282518 TATTCTATTTCAGGACTCAAACTTTATTTTTTAAATCACATCTAACATTTATTTTAGGTTACAAT
130 TATTCTATTTCAGTACTCAAACTTTATTTTTTAAATCACAACTAACATTTATTTTAGGTTACAAT
3282583 TTGGTACCCACTGTTAAAAAATTAATAGAATTGCTGACGTGATAATTTTTTTATTTTTCCAATGA
195 TTGGTACCCACTGTTAAAAAATTAATAGAATTGCTGACGTGATAATTTTTTTATTTTTCCAATGA
*
3282648 TAATATGACATTACCTTATG
260 TGATATGACATTACCTTATG
*
3282668 ATCGTTAAATTTCAACGAAATCAATAATAATATTATAAAAAATAAATATCAAAATAAAAAATAAT
1 ATCGTTAAATTTCAACGAAATCAATAATAATATTATAAAAAATAAATATCACAATAAAAAATAAT
* *
3282733 AATAGTTTGATAAGTATTAAAATAATTGGATAAATTTCTTATTTAATACCTAAATTATTATTTTT
66 AATAGTTTGATAAGTATTAAAATAATTGGATAAATTACATATTTAATACCTAAATTATTATTTTT
* * * *
3282798 ATTCTATTTTAGTACTCAAACTTTATTTTTAAAATCACAACTTACATTAATTTTAGGTTACAATT
131 ATTCTATTTCAGTACTCAAACTTTATTTTTTAAATCACAACTAACATTTATTTTAGGTTACAATT
* * *
3282863 TGGTACCCACTGTTAAAAAATTAATAAAATTGCTGACGTGATCATTTTTTTATTTTTCTAATGAT
196 TGGTACCCACTGTTAAAAAATTAATAGAATTGCTGACGTGATAATTTTTTTATTTTTCCAATGAT
3282928 G-TATGACATTACCTTATG
261 GATATGACATTACCTTATG
3282946 ATCGTTAAATTTCAACGAAATCAATAATAATATTATAAAAAATAAATATCACAATAAAAAAATAA
1 ATCGTTAAATTTCAACGAAATCAATAATAATATTATAAAAAATAAATATCACAAT-AAAAAATAA
* * * *
3283011 TAATAGTTTGATAAGTATTAAAATAATCGAATAATTTTCATATTTAATACCTAAATTATTATTTT
65 TAATAGTTTGATAAGTATTAAAATAATTGGATAAATTACATATTTAATACCTAAATTATTATTTT
*
3283076 TATTCTATTTTAGTACTCAAACTTTATTTTTTAAATCACAACTAACATTTATTTTAGGTTACAAT
130 TATTCTATTTCAGTACTCAAACTTTATTTTTTAAATCACAACTAACATTTATTTTAGGTTACAAT
* * *
3283141 TTGGTACCCACTATTAAAAAATTAATAGAATTACTGACGTAATAATTTTTTTTTTATTTTTCCAA
195 TTGGTACCCACTGTTAAAAAATTAATAGAATTGCTGACGTGATAA---TTTTTTTATTTTTCCAA
* *
3283206 TGATGATATGACATTACTTTATA
257 TGATGATATGACATTACCTTATG
*
3283229 ATCGTTAATTTTCAACGAAATCAATAATAATATTATAAAAAATAAATATCACAAT-AAAAATAAT
1 ATCGTTAAATTTCAACGAAATCAATAATAATATTATAAAAAATAAATATCACAATAAAAAATAAT
* *
3283293 AATATTTTGATAAGTATTAAAATGATTGGATAAATTACATATTTAATACCT--A--A-T-TTTTT
66 AATAGTTTGATAAGTATTAAAATAATTGGATAAATTACATATTTAATACCTAAATTATTATTTTT
* *
3283352 -TTCTATTTCAGTACTCAAACTTTATTTTTTTAAATCACACCTAACATTTATTTTAGGTTTCAAT
131 ATTCTATTTCAGTACTCAAACTTTA-TTTTTTAAATCACAACTAACATTTATTTTAGGTTACAAT
* * * * * *
3283416 TTGGTATCCAATGTTAAAAAATTAATAGAATTGTTAACTTGAT-A-CTTTTT-TTTTT-CAATGA
195 TTGGTACCCACTGTTAAAAAATTAATAGAATTGCTGACGTGATAATTTTTTTATTTTTCCAATGA
3283477 TGATATGACATTACCTTATG
260 TGATATGACATTACCTTATG
3283497 AT
1 AT
3283499 GACATATCAA
Statistics
Matches: 772, Mismatches: 53, Indels: 24
0.91 0.06 0.03
Matches are distributed among these distances:
268 26 0.03
269 5 0.01
270 5 0.01
274 24 0.03
275 77 0.10
276 1 0.00
277 1 0.00
278 71 0.09
279 410 0.53
280 8 0.01
281 54 0.07
282 21 0.03
283 69 0.09
ACGTcount: A:0.41, C:0.10, G:0.07, T:0.42
Consensus pattern (279 bp):
ATCGTTAAATTTCAACGAAATCAATAATAATATTATAAAAAATAAATATCACAATAAAAAATAAT
AATAGTTTGATAAGTATTAAAATAATTGGATAAATTACATATTTAATACCTAAATTATTATTTTT
ATTCTATTTCAGTACTCAAACTTTATTTTTTAAATCACAACTAACATTTATTTTAGGTTACAATT
TGGTACCCACTGTTAAAAAATTAATAGAATTGCTGACGTGATAATTTTTTTATTTTTCCAATGAT
GATATGACATTACCTTATG
Found at i:3288050 original size:21 final size:18
Alignment explanation
Indices: 3288011--3288050 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 18
3288001 CCGTTATCAC
3288011 TTTGGAAATTTTATAAGT
1 TTTGGAAATTTTATAAGT
3288029 TTTGGCAACATTTTACTAAGT
1 TTTGG-AA-ATTTTA-TAAGT
3288050 T
1 T
3288051 ACTAAGCTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.26
19 2 0.11
20 6 0.32
21 6 0.32
ACGTcount: A:0.30, C:0.07, G:0.15, T:0.47
Consensus pattern (18 bp):
TTTGGAAATTTTATAAGT
Found at i:3298412 original size:84 final size:84
Alignment explanation
Indices: 3298159--3300593 Score: 1634
Period size: 84 Copynumber: 29.2 Consensus size: 84
3298149 GAGCCAAAAA
* ** * * * * *
3298159 AAAATTGTCATGAAACTTACTTTTCATATTCCATATGTTTT-AATATATGCCAAGAGAAGG-GGA
1 AAAATTGACATGAAACTTACCCTTCAGATTCCACAT-TTTTCAGTATGTGCCAAGAG-AGGAGAA
* * * ***
3298222 CATGGTTGCTAACGAACTCTT
64 CATGGTTGCTGATGAGCTAGC
* * ** * **
3298243 AAAATTGACATGAAACTTACCTTTCATATTCCAC-CGTTTCAATACATGCTCATAGAGA-G-GAA
1 AAAATTGACATGAAACTTACCCTTCAGATTCCACATTTTTCAGTATGTGC-CA-AGAGAGGAGAA
3298305 CATGGTTGCTGATGAGCTAGC
64 CATGGTTGCTGATGAGCTAGC
* * * * * *
3298326 AAAATTGACATGGAATTTATCCTTCAGATTCCACATTTTTCAGTATGTGCCAAGATAGGGGAATA
1 AAAATTGACATGAAACTTACCCTTCAGATTCCACATTTTTCAGTATGTGCCAAGAGAGGAGAACA
* * *
3298391 TAGTTGTTGATGAGTTAGC
66 TGGTTGCTGATGAGCTAGC
* * * * * **
3298410 AAAAGTGACATGAAATTTACCCTTTC-GATTTCACATGTTTT-AGTATGTTCCAATAGAAAAGAA
1 AAAATTGACATGAAACTTACCC-TTCAGATTCCACAT-TTTTCAGTATGTGCCAAGAGAGGAGAA
* * ** *
3298473 TATAGACGCTGACGAGCTAGC
64 CATGGTTGCTGATGAGCTAGC
* * * * * * * * * * * *
3298494 AAAATTAACATGAAAATTACCCTTTATATTTCACCTATATCAATATGTGCCAGGAGAGGGGAACT
1 AAAATTGACATGAAACTTACCCTTCAGATTCCACATTTTTCAGTATGTGCCAAGAGAGGAGAACA
**
3298559 TGGTTGCTGATGAATTAGC
66 TGGTTGCTGATGAGCTAGC
* * * * * * *
3298578 AAAATTAACATAAAACTTACCCTTTATATTTCACATGTTTCAAT-TAGTGCCAAGAGAGGAGAAC
1 AAAATTGACATGAAACTTACCCTTCAGATTCCACATTTTTCAGTAT-GTGCCAAGAGAGGAGAAC
* * *
3298642 ATGATTGTTGATGAGCTAAC
65 ATGGTTGCTGATGAGCTAGC
* * ** * *
3298662 AAAATTGACATGAAACTTACTCTTTAGATTTTAC-TTGATTCAGTATGTGCCAAGAGAGGAAAAC
1 AAAATTGACATGAAACTTACCCTTCAGATTCCACATT-TTTCAGTATGTGCCAAGAGAGGAGAAC
*
3298726 ATGATTGCTGATGAGCTAGC
65 ATGGTTGCTGATGAGCTAGC
* * * * * * *
3298746 GAAATTGACATGAAACTAACCCTTCAAATACCACATATTTT-AATATGTGCCAAGAGAGGATAAT
1 AAAATTGACATGAAACTTACCCTTCAGATTCCACAT-TTTTCAGTATGTGCCAAGAGAGGAGAAC
*
3298810 ATGGTTACTGATGAGCTA-C
65 ATGGTTGCTGATGAGCTAGC
* * * * *
3298829 AAAAATTGAAAAGAAACTTACCCTTCAGATTCTACCTGCTTT-AGTATGTGCCAAGAGAGG-GAA
1 -AAAATTGACATGAAACTTACCCTTCAGATTCCACAT-TTTTCAGTATGTGCCAAGAGAGGAGAA
* * * * *
3298892 CATGTTTGATAAAGAGCTGGC
64 CATGGTTGCTGATGAGCTAGC
* * * * *
3298913 AAAATTGACATGAAACATACCCTTCAAATTCAAC-TTGTTTTAGTATGTGCCAAAAGAGGAGAAC
1 AAAATTGACATGAAACTTACCCTTCAGATTCCACATT-TTTCAGTATGTGCCAAGAGAGGAGAAC
* *
3298977 ATGGTT-CTTGATGATCTAGT
65 ATGGTTGC-TGATGAGCTAGC
* * * * * *
3298997 AAAATTGATATTAAACTTACCCTTTAGATTCC-CCTGTTTT-AGTATGTGCTAAGAGAGGTGAAC
1 AAAATTGACATGAAACTTACCCTTCAGATTCCACAT-TTTTCAGTATGTGCCAAGAGAGGAGAAC
* *
3299060 ATGGTTGGTGATGAGCTAGA
65 ATGGTTGCTGATGAGCTAGC
** * * * * * * * *
3299080 AAAATTGGTATGGAACTTACCTTTCAAATTCCACCTATTTCAATATATGCCAAGAGAGGAAAACA
1 AAAATTGACATGAAACTTACCCTTCAGATTCCACATTTTTCAGTATGTGCCAAGAGAGGAGAACA
*
3299145 TGGTTG-TCGATGAGCTAGA
66 TGGTTGCT-GATGAGCTAGC
* * * * * * * * *
3299164 AAAATTAACATGGAACTTAGCCTTTAGATTCCACCTATTTCAGTATGTGCCAACAGAGGGGAACG
1 AAAATTGACATGAAACTTACCCTTCAGATTCCACATTTTTCAGTATGTGCCAAGAGAGGAGAACA
* *
3299229 TGGTTTCT-ATGAGCTAGA
66 TGGTTGCTGATGAGCTAGC
* ** * *
3299247 AAAATTGACATGAAACTTA-CCTGTCAGATTCCACATATTTCAAAATGTGCCAAGAAAGGAAAAC
1 AAAATTGACATGAAACTTACCCT-TCAGATTCCACATTTTTCAGTATGTGCCAAGAGAGGAGAAC
* *
3299311 ATGTTTGC-GAATGAGCTAGA
65 ATGGTTGCTG-ATGAGCTAGC
* * * * * * *
3299331 AAAATT-ATCATGAAACCTACCTTTAAGATTTCAC-TTGTTTCAATATATGCCAAGAGAAGAGAA
1 AAAATTGA-CATGAAACTTACCCTTCAGATTCCACATT-TTTCAGTATGTGCCAAGAGAGGAGAA
*
3299394 CATGGTTGTTGATGAGCTAGC
64 CATGGTTGCTGATGAGCTAGC
* * * * * *
3299415 AAAATTGACATAAAACTTACCCTTTAGATTCCA-ATTGTTTTAGTATATACCAAGAGAGGGGAAC
1 AAAATTGACATGAAACTTACCCTTCAGATTCCACATT-TTTCAGTATGTGCCAAGAGAGGAGAAC
3299479 ATGGTTGCTGATGAGCTAGC
65 ATGGTTGCTGATGAGCTAGC
* * * * * * * * * * *
3299499 AAAATTGATATGAAAATTACCTTTCAAATTGCACCTGTTTCAATATGAGCCAAAAGAGTAGAACA
1 AAAATTGACATGAAACTTACCCTTCAGATTCCACATTTTTCAGTATGTGCCAAGAGAGGAGAACA
* *
3299564 TGGTT-TTCGATGAGCTAGT
66 TGGTTGCT-GATGAGCTAGC
* * * * * ** * * * * *
3299583 AAAATAGACATGAAACTTACCCTTTAAACTCTACATACTTCGGTATTTTCTAAGAGAGGGGAACA
1 AAAATTGACATGAAACTTACCCTTCAGATTCCACATTTTTCAGTATGTGCCAAGAGAGGAGAACA
*
3299648 TGGTTGCTCATGAGCTAGC
66 TGGTTGCTGATGAGCTAGC
** * * * * *
3299667 AAAATTGGTATGAAACTTATCCTTCAGGTTCCACCTATTTCAGTATATGCCAAGAGAGG-GAAGC
1 AAAATTGACATGAAACTTACCCTTCAGATTCCACATTTTTCAGTATGTGCCAAGAGAGGAGAA-C
3299731 ATGGTTGCTGATGAGCTAGC
65 ATGGTTGCTGATGAGCTAGC
* * * * * * * * *
3299751 TAAATTGATATGTAATTTACCCTTCAAATTCCACCTTTTTCAGTATATTCC-AGTAGATTG-GAA
1 AAAATTGACATGAAACTTACCCTTCAGATTCCACATTTTTCAGTATGTGCCAAG-AGA-GGAGAA
*
3299814 CATGGTTGCTGATGAGCTACC
64 CATGGTTGCTGATGAGCTAGC
* * ** *
3299835 AAAATTGACATGAAACTTACCCTTCAGATTTCACATGTTTT-AGTATGTGCCAAGGGAAAAGAGC
1 AAAATTGACATGAAACTTACCCTTCAGATTCCACAT-TTTTCAGTATGTGCCAAGAGAGGAGAAC
*** * **
3299899 ATGGGCACTGATGAGATATA
65 ATGGTTGCTGATGAGCTAGC
* * * * * * * *
3299919 AAAATTAACATGAAACTTACCCTTTAGATTTCACCTATATT-AATATTTGCCAAGAGAGGGGAAC
1 AAAATTGACATGAAACTTACCCTTCAGATTCCACAT-TTTTCAGTATGTGCCAAGAGAGGAGAAC
* *
3299983 TTAGTTGCTGATGAGCTAGC
65 ATGGTTGCTGATGAGCTAGC
* * * * * * ** *
3300003 AAAACTAACATG------ACCCTTAATATTCCACCTATTTCAGT-TAAAGCCAAGTGAGGAGAAC
1 AAAATTGACATGAAACTTACCCTTCAGATTCCACATTTTTCAGTAT-GTGCCAAGAGAGGAGAAC
** * *
3300061 ATTATTGCTGATAAGCTAAC
65 ATGGTTGCTGATGAGCTAGC
* * * * * *
3300081 AAAATTAACATGAAACTTACTCTTCAGATTCTACCTATTTT-AATATGTGCCAAGAGAGGAAAAC
1 AAAATTGACATGAAACTTACCCTTCAGATTCCACAT-TTTTCAGTATGTGCCAAGAGAGGAGAAC
* *
3300145 ATGATTACTGATGAGCTAGC
65 ATGGTTGCTGATGAGCTAGC
* * * **
3300165 CAAGTTGACATGAAACTTA--C--C--A----AC-TTGTTTCAGTATGTGCCAA-AAAAAAGGAA
1 AAAATTGACATGAAACTTACCCTTCAGATTCCACATT-TTTCAGTATGTGCCAAGAGAGGA-GAA
* * *
3300218 CATGGTTGATGATGAGTTAGA
64 CATGGTTGCTGATGAGCTAGC
* * * * * * *
3300239 AAAATTGAAAT-AAACTTACCCTTCAGATTCCACCTGTTTT-AATATATGCCGAGAGAGGATAAT
1 AAAATTGACATGAAACTTACCCTTCAGATTCCACAT-TTTTCAGTATGTGCCAAGAGAGGAGAAC
* *
3300302 ATGGTTACTGATGAGCTAGA
65 ATGGTTGCTGATGAGCTAGC
* * * * * * * *
3300322 AAAATTGACATGTAACTTTCCCTTCAAATTCCACCA-GTTTCAGTGTGAGCCAAAAGTGGAGAAC
1 AAAATTGACATGAAACTTACCCTTCAGATTCCA-CATTTTTCAGTATGTGCCAAGAGAGGAGAAC
3300386 ATGGTTGCTGATGAGCTAGC
65 ATGGTTGCTGATGAGCTAGC
* * * * * * * * *
3300406 AAAATTGACATGAAACTTACCCTTCATATTTCATC-TGTTTCAGTAAGTGTCAAAATAGGATAAT
1 AAAATTGACATGAAACTTACCCTTCAGATTCCA-CATTTTTCAGTATGTGCCAAGAGAGGAGAAC
* *
3300470 ATGGTTTCTGATGAGCTAGA
65 ATGGTTGCTGATGAGCTAGC
* ** * * * *
3300490 AAAATTGACATGAAACCTACTATTCAG-TCTCTAC-CTGTTCACTATGTGCCAAGAGAGGAGAAC
1 AAAATTGACATGAAACTTACCCTTCAGAT-TCCACATTTTTCAGTATGTGCCAAGAGAGGAGAAC
* * *
3300553 ATGATTTCTGATGAGCTAGT
65 ATGGTTGCTGATGAGCTAGC
* *
3300573 TAAATTGAAATGAAACTTACC
1 AAAATTGACATGAAACTTACC
3300594 ATAAGTTCAA
Statistics
Matches: 1842, Mismatches: 432, Indels: 155
0.76 0.18 0.06
Matches are distributed among these distances:
72 1 0.00
73 14 0.01
74 39 0.02
75 1 0.00
77 4 0.00
78 58 0.03
79 1 0.00
80 1 0.00
82 15 0.01
83 364 0.20
84 1304 0.71
85 39 0.02
86 1 0.00
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (84 bp):
AAAATTGACATGAAACTTACCCTTCAGATTCCACATTTTTCAGTATGTGCCAAGAGAGGAGAACA
TGGTTGCTGATGAGCTAGC
Found at i:3298793 original size:252 final size:252
Alignment explanation
Indices: 3297988--3301353 Score: 1946
Period size: 252 Copynumber: 13.5 Consensus size: 252
3297978 ATATGGTTAT
* * * *
3297988 TGATGAGCTAGCAAAATTGACATGAAACTTACCCTTCAGATTCCACATGTTTCAGTATGTGCCAA
1 TGATGAGCTAGCAAAATTGACATGAAACTTACCCTTCAAATTCCACCTATTTCAATATGTGCCAA
* * * * * *
3298053 GAGAGGGGAACATGGTTGCTAATGAGCTAGCCAAATTGATATGAAACTTACCAC--C-TATTT--
66 GAGAGGAGAACATGGTTGCTGATGAGCTAGCAAAATTAACATGAAACTTACC-CTTCAGATTTCA
* ** * * ** *
3298113 TA-G--T--A-T-GTGCCAAGAGAAAGG-G-ACATGACTGTTGATGAGCCAAAAAAAAATTGTCA
130 CATGTTTCAATTAGTGCCAAGAG--AGGAGAACATGGTTGCTGATGAG-C-TAGCAAAATTGACA
* * * * * * **
3298169 TGAAACTTA-CTTTTCATATTCCA-TATGTTTTAATATATGCCAAGAGAAGG-GGACATGGTTGC
191 TGAAACTTACCCTTT-AGATTTCACT-TGTTTCAGTATGTGCCAAGAG-AGGAAAACATGGTTGC
* * * *** * * * **
3298231 TAACGAACTCTTAAAATTGACATGAAACTTACCTTTCATATTCCACC-GTTTCAATACATGCTCA
1 TGATGAGCTAGCAAAATTGACATGAAACTTACCCTTCAAATTCCACCTATTTCAATATGTGC-CA
* * * * *
3298295 TAGAGA-G-GAACATGGTTGCTGATGAGCTAGCAAAATTGACATGGAATTTATCCTTCAGATTCC
65 -AGAGAGGAGAACATGGTTGCTGATGAGCTAGCAAAATTAACATGAAACTTACCCTTCAGATTTC
* * * * * * * * *
3298358 ACATTTTTC-AGTATGTGCCAAGATAGGGGAATATAGTTGTTGATGAGTTAGCAAAAGTGACATG
129 ACATGTTTCAATTA-GTGCCAAGAGAGGAGAACATGGTTGCTGATGAGCTAGCAAAATTGACATG
* * * * * * * * * **
3298422 AAATTTACCCTTTCGATTTCACATGTTTTAGTATGTTCCAATAGA-AAAGAATATAGACGC
193 AAACTTACCCTTTAGATTTCACTTGTTTCAGTATGTGCCAAGAGAGGAA-AACATGGTTGC
* * * * * * * *
3298482 TGACGAGCTAGCAAAATTAACATGAAAATTACCCTTTATATTTCACCTATATCAATATGTGCCAG
1 TGATGAGCTAGCAAAATTGACATGAAACTTACCCTTCAAATTCCACCTATTTCAATATGTGCCAA
* * ** * * *
3298547 GAGAGGGGAACTTGGTTGCTGATGAATTAGCAAAATTAACATAAAACTTACCCTTTATATTTCAC
66 GAGAGGAGAACATGGTTGCTGATGAGCTAGCAAAATTAACATGAAACTTACCCTTCAGATTTCAC
* * *
3298612 ATGTTTCAATTAGTGCCAAGAGAGGAGAACATGATTGTTGATGAGCTAACAAAATTGACATGAAA
131 ATGTTTCAATTAGTGCCAAGAGAGGAGAACATGGTTGCTGATGAGCTAGCAAAATTGACATGAAA
* * * *
3298677 CTTACTCTTTAGATTTTACTTGATTCAGTATGTGCCAAGAGAGGAAAACATGATTGC
196 CTTACCCTTTAGATTTCACTTGTTTCAGTATGTGCCAAGAGAGGAAAACATGGTTGC
* * * * *
3298734 TGATGAGCTAGCGAAATTGACATGAAACTAACCCTTCAAATACCACATATTTTAATATGTGCCAA
1 TGATGAGCTAGCAAAATTGACATGAAACTTACCCTTCAAATTCCACCTATTTCAATATGTGCCAA
* * * *
3298799 GAGAGGATAATATGGTTACTGATGAGCTA-CAAAAATTGAA-AAGAAACTTACCCTTCAGA-TTC
66 GAGAGGAGAACATGGTTGCTGATGAGCTAGC-AAAATT-AACATGAAACTTACCCTTCAGATTTC
* * * * * * *
3298861 TACCTGCTTT--AGTATGTGCCAAGAGAGG-GAACATGTTTGATAAAGAGCTGGCAAAATTGACA
129 -ACATG-TTTCAATTA-GTGCCAAGAGAGGAGAACATGGTTGCTGATGAGCTAGCAAAATTGACA
* * * * * *
3298923 TGAAACATACCCTTCA-AATTCAACTTGTTTTAGTATGTGCCAAAAGAGGAGAACATGGTT-C
191 TGAAACTTACCCTTTAGATTTC-ACTTGTTTCAGTATGTGCCAAGAGAGGAAAACATGGTTGC
* * * * * * * * * *
3298984 TTGATGATCTAGTAAAATTGATATTAAACTTACCCTTTAGATTCC-CCTGTTTTAGTATGTGCTA
1 -TGATGAGCTAGCAAAATTGACATGAAACTTACCCTTCAAATTCCACCTATTTCAATATGTGCCA
* * * *** * * * *
3299048 AGAGAGGTGAACATGGTTGGTGATGAGCTAGAAAAATTGGTATGGAACTTACCTTTCAAATTCCA
65 AGAGAGGAGAACATGGTTGCTGATGAGCTAGCAAAATTAACATGAAACTTACCCTTCAGATTTCA
* * * * *
3299113 CCTATTTCAATATA-TGCCAAGAGAGGAAAACATGGTTG-TCGATGAGCTAGAAAAATTAACATG
130 CATGTTTCAAT-TAGTGCCAAGAGAGGAGAACATGGTTGCT-GATGAGCTAGCAAAATTGACATG
* * * * * * ** * *
3299176 GAACTTAGCCTTTAGATTCCACCTATTTCAGTATGTGCCAACAGAGGGGAACGTGGTTTC
193 AAACTTACCCTTTAGATTTCACTTGTTTCAGTATGTGCCAAGAGAGGAAAACATGGTTGC
* * * *
3299236 T-ATGAGCTAGAAAAATTGACATGAAACTTA-CCTGTCAGATTCCACATATTTCAAAATGTGCCA
1 TGATGAGCTAGCAAAATTGACATGAAACTTACCCT-TCAAATTCCACCTATTTCAATATGTGCCA
* * * * * * * *
3299299 AGAAAGGAAAACATGTTTGC-GAATGAGCTAGAAAAATTATCATGAAACCTACCTTTAAGATTTC
65 AGAGAGGAGAACATGGTTGCTG-ATGAGCTAGCAAAATTAACATGAAACTTACCCTTCAGATTTC
* * * *
3299363 ACTTGTTTCAATATA-TGCCAAGAGAAGAGAACATGGTTGTTGATGAGCTAGCAAAATTGACATA
129 ACATGTTTCAAT-TAGTGCCAAGAGAGGAGAACATGGTTGCTGATGAGCTAGCAAAATTGACATG
* * * * * **
3299427 AAACTTACCCTTTAGATTCCAATTGTTTTAGTATATACCAAGAGAGGGGAACATGGTTGC
193 AAACTTACCCTTTAGATTTCACTTGTTTCAGTATGTGCCAAGAGAGGAAAACATGGTTGC
* * * * * *
3299487 TGATGAGCTAGCAAAATTGATATGAAAATTACCTTTCAAATTGCACCTGTTTCAATATGAGCCAA
1 TGATGAGCTAGCAAAATTGACATGAAACTTACCCTTCAAATTCCACCTATTTCAATATGTGCCAA
* * * * * **
3299552 AAGAGTAGAACATGGTT-TTCGATGAGCTAGTAAAA-TAGACATGAAACTTACCCTTTA-AACTC
66 GAGAGGAGAACATGGTTGCT-GATGAGCTAGCAAAATTA-ACATGAAACTTACCCTTCAGATTTC
** * * * * * **
3299614 TACATACTTCGGTATT--TTCTAAGAGAGGGGAACATGGTTGCTCATGAGCTAGCAAAATTGGTA
129 -ACATGTTTC--AATTAGTGCCAAGAGAGGAGAACATGGTTGCTGATGAGCTAGCAAAATTGACA
* * * * * * * * *
3299677 TGAAACTTATCCTTCAGGTTCCACCTATTTCAGTATATGCCAAGAGAGGGAAGCATGGTTGC
191 TGAAACTTACCCTTTAGATTTCACTTGTTTCAGTATGTGCCAAGAGAGGAAAACATGGTTGC
* * * * * * * *
3299739 TGATGAGCTAGCTAAATTGATATGTAATTTACCCTTCAAATTCCACCTTTTTCAGTATATTCC-A
1 TGATGAGCTAGCAAAATTGACATGAAACTTACCCTTCAAATTCCACCTATTTCAATATGTGCCAA
* * *
3299803 GTAGATTG-GAACATGGTTGCTGATGAGCTACCAAAATTGACATGAAACTTACCCTTCAGATTTC
66 G-AGA-GGAGAACATGGTTGCTGATGAGCTAGCAAAATTAACATGAAACTTACCCTTCAGATTTC
* * * ** * *** * ** *
3299867 ACATGTTT-TAGTATGTGCCAAGGGAAAAGAGCATGGGCACTGATGAGATATAAAAATTAACATG
129 ACATGTTTCAATTA-GTGCCAAGAGAGGAGAACATGGTTGCTGATGAGCTAGCAAAATTGACATG
* * * * ** * *
3299931 AAACTTACCCTTTAGATTTCACCTATATT-AATATTTGCCAAGAGAGGGGAACTTAGTTGC
193 AAACTTACCCTTTAGATTTCACTTGT-TTCAGTATGTGCCAAGAGAGGAAAACATGGTTGC
* * * **
3299991 TGATGAGCTAGCAAAACTAACATG------ACCCTT-AATATTCCACCTATTTCAGT-TAAAGCC
1 TGATGAGCTAGCAAAATTGACATGAAACTTACCCTTCAA-ATTCCACCTATTTCAATAT-GTGCC
* ** * * *
3300048 AAGTGAGGAGAACATTATTGCTGATAAGCTAACAAAATTAACATGAAACTTACTCTTCAGA-TTC
64 AAGAGAGGAGAACATGGTTGCTGATGAGCTAGCAAAATTAACATGAAACTTACCCTTCAGATTTC
* * * * * * * *
3300112 TACCTATTTTAA-TATGTGCCAAGAGAGGAAAACATGATTACTGATGAGCTAGCCAAGTTGACAT
129 -ACATGTTTCAATTA-GTGCCAAGAGAGGAGAACATGGTTGCTGATGAGCTAGCAAAATTGACAT
** *
3300176 GAAACTTA-CC-----A----ACTTGTTTCAGTATGTGCCAA-A-AAAAAGGAACATGGTTGA
192 GAAACTTACCCTTTAGATTTCACTTGTTTCAGTATGTGCCAAGAGAGGAA--AACATGGTTGC
* * * * * * * *
3300227 TGATGAGTTAGAAAAATTGAAAT-AAACTTACCCTTCAGATTCCACCTGTTTTAATATATGCCGA
1 TGATGAGCTAGCAAAATTGACATGAAACTTACCCTTCAAATTCCACCTATTTCAATATGTGCCAA
* * * * * * * * *
3300291 GAGAGGATAATATGGTTACTGATGAGCTAGAAAAATTGACATGTAACTTTCCCTTCAAATTCCAC
66 GAGAGGAGAACATGGTTGCTGATGAGCTAGCAAAATTAACATGAAACTTACCCTTCAGATTTCA-
* * * *
3300356 CA-GTTTCAGTGT-GAGCCAAAAGTGGAGAACATGGTTGCTGATGAGCTAGCAAAATTGACATGA
130 CATGTTTCAAT-TAGTGCCAAGAGAGGAGAACATGGTTGCTGATGAGCTAGCAAAATTGACATGA
* * * * * * * * *
3300419 AACTTACCCTTCATATTTCA-TCTGTTTCAGTAAGTGTCAAAATAGGATAATATGGTTTC
194 AACTTACCCTTTAGATTTCACT-TGTTTCAGTATGTGCCAAGAGAGGAAAACATGGTTGC
* * ** * * * *
3300478 TGATGAGCTAGAAAAATTGACATGAAACCTACTATTC-AGTCTCTACCT-GTTCACTATGTGCCA
1 TGATGAGCTAGCAAAATTGACATGAAACTTACCCTTCAAAT-TCCACCTATTTCAATATGTGCCA
* * **
3300541 AGAGAGGAGAACATGATTTCTGATGAGCTAGTTAAATTGAA-ATGAAACTTA--C--C--A--T-
65 AGAGAGGAGAACATGGTTGCTGATGAGCTAGCAAAATT-AACATGAAACTTACCCTTCAGATTTC
* *
3300596 A-A-G-TTCAAAT-GTGCCAAGAGAAGG-GAACATGGTTGATGATGAGCTAGC-AAATTGACATG
129 ACATGTTTCAATTAGTGCCAAGAG-AGGAGAACATGGTTGCTGATGAGCTAGCAAAATTGACATG
* * * ** * * *
3300655 -AACTTACCCTTCAGATTTCACATGTTTTAGTATGTGTGAAGAGA-TAATAACATGTTTAC
193 AAACTTACCCTTTAGATTTCACTTGTTTCAGTATGTGCCAAGAGAGGAA-AACATGGTTGC
* * * * * * *
3300714 CGATGAGCTAGCAAAACTGACATGAAACTTACCCTTCATATTCTACATGTTTCAGTATGTGCCAA
1 TGATGAGCTAGCAAAATTGACATGAAACTTACCCTTCAAATTCCACCTATTTCAATATGTGCCAA
* * * *
3300779 GGGAGGGGAACATGGTTGCTGATGAGATAGCAAAATTGAA-ATGAAACTTACCCTTCA-AATTCT
66 GAGAGGAGAACATGGTTGCTGATGAGCTAGCAAAATT-AACATGAAACTTACCCTTCAGATTTC-
* * * * * * *
3300842 ATATGTTTC-AGTATGTGCCAAAAGAGGAGATCATAGTTGCTGATGAGCTAGTAAAATTTACATG
129 ACATGTTTCAATTA-GTGCCAAGAGAGGAGAACATGGTTGCTGATGAGCTAGCAAAATTGACATG
* * *
3300906 AAACTTACCCTTTATATTCCACTTACCCTTTATATTCCACTTGTTTCAGTATGTTCTAAGAGAGG
193 AAACTTACCC-------T----TTA-----GAT-TT-CACTTGTTTCAGTATGTGCCAAGAGAGG
** * *
3300971 GTAACATGTTTGT
240 AAAACATGGTTGC
* ** ** * *** * ** * * * **
3300984 TGATGAGCTAACAAAATTGGTATGGGACTTACCATTTGTATTCAAAATATTTTAGTATATGAGAA
1 TGATGAGCTAGCAAAATTGACATGAAACTTACCCTTCAAATTCCACCTATTTCAATATGTGCCAA
* * * * * * * *
3301049 GAGAGGGGAACATGGTTGTTGGTGAGCTAGCAAAATTGACATGGAATTTATCCTTCAGATTCCAC
66 GAGAGGAGAACATGGTTGCTGATGAGCTAGCAAAATTAACATGAAACTTACCCTTCAGATTTCAC
* * * * * * * * * *
3301114 CTGTTT--TTGTATGTTCTAAGGGAGAGGGGAAAATGATTTCGGATGAGCTAGTAAAATTGACAT
131 ATGTTTCAAT-TA-GTGCCAA--GAGAGGAGAACATGGTTGCTGATGAGCTAGCAAAATTGACAT
* * * * ** *
3301177 GAAACTTACACTTTAGA-TTCTGCTTGTTTTAGTATGTGCCAAGCGAGGGGAACATGGTTAC
192 GAAACTTACCCTTTAGATTTC-ACTTGTTTCAGTATGTGCCAAGAGAGGAAAACATGGTTGC
* * * * * * *
3301238 TGATGAGCTAG-TAAATTGACATGGAACTTACCCTTTAGATTCCTCC-AGTTTTAGTATGTGCCA
1 TGATGAGCTAGCAAAATTGACATGAAACTTACCCTTCAAATTCCACCTA-TTTCAATATGTGCCA
* * * *
3301301 AGAGAGGATAACGTGGGGTTACTGATGAGCTAGCAAAATTGACATGAAACTTA
65 AGAGAGGAGAACAT--GGTTGCTGATGAGCTAGCAAAATTAACATGAAACTTA
3301354 TGTTAGAGTA
Statistics
Matches: 2402, Mismatches: 571, Indels: 288
0.74 0.18 0.09
Matches are distributed among these distances:
234 1 0.00
235 4 0.00
236 121 0.05
237 69 0.03
238 32 0.01
239 7 0.00
240 3 0.00
241 126 0.05
242 59 0.02
243 43 0.02
244 9 0.00
245 10 0.00
246 127 0.05
247 6 0.00
248 3 0.00
249 17 0.01
250 152 0.06
251 558 0.23
252 687 0.29
253 93 0.04
254 45 0.02
255 32 0.01
256 1 0.00
259 1 0.00
261 3 0.00
263 2 0.00
265 1 0.00
268 2 0.00
269 3 0.00
270 139 0.06
271 3 0.00
272 43 0.02
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (252 bp):
TGATGAGCTAGCAAAATTGACATGAAACTTACCCTTCAAATTCCACCTATTTCAATATGTGCCAA
GAGAGGAGAACATGGTTGCTGATGAGCTAGCAAAATTAACATGAAACTTACCCTTCAGATTTCAC
ATGTTTCAATTAGTGCCAAGAGAGGAGAACATGGTTGCTGATGAGCTAGCAAAATTGACATGAAA
CTTACCCTTTAGATTTCACTTGTTTCAGTATGTGCCAAGAGAGGAAAACATGGTTGC
Found at i:3299003 original size:167 final size:168
Alignment explanation
Indices: 3298206--3301353 Score: 1858
Period size: 168 Copynumber: 18.8 Consensus size: 168
3298196 TTTTAATATA
* * * * *** * *
3298206 TGCCAAGAGAAGGGGACATGGTTGCTAACGAACTCTTAAAATTGACATGAAACTTACCTTTCATA
1 TGCCAAGAG-AGGGAACATGGTTGCTGATGAGCTAGCAAAATTGACATGAAACTTACCCTTCAAA
* ** * **
3298271 TTCCAC-CGTTTCAATACATGCTCATAGAGA-G-GAACATGGTTGCTGATGAGCTAGCAAAATTG
65 TTCAACATATTTCAGTATGTGC-CA-AGAGAGGAGAACATGGTTGCTGATGAGCTAGCAAAATTG
* * * * * *
3298333 ACATGGAATTTATCCTTCAGATTCCACAT-TTTTCAGTATG
128 ACATGAAACTTACCCTTCAGATTCTACCTGATTTCAGTATG
* * * * * * * *
3298373 TGCCAAGATAGGGGAATATAGTTGTTGATGAGTTAGCAAAAGTGACATGAAATTTACCCTTTCGA
1 TGCCAAGAGA-GGGAACATGGTTGCTGATGAGCTAGCAAAATTGACATGAAACTTACCC-TTCAA
* * * * * ** * * ** * *
3298438 TTTC-ACATGTTTTAGTATGTTCCAATAGAAAAGAATATAGACGCTGACGAGCTAGCAAAATTAA
64 ATTCAACATATTTCAGTATGTGCCAAGAGAGGAGAACATGGTTGCTGATGAGCTAGCAAAATTGA
* * * * *
3298502 CATGAAAATTACCCTTTATATT-TCACCT-ATATCAATATG
129 CATGAAACTTACCCTTCAGATTCT-ACCTGATTTCAGTATG
* * ** * * *
3298541 TGCCAGGAGAGGGGAACTTGGTTGCTGATGAATTAGCAAAATTAACATAAAACTTACCCTTTATA
1 TGCCAAGAGA-GGGAACATGGTTGCTGATGAGCTAGCAAAATTGACATGAAACTTACCCTTCA-A
* * * * * *
3298606 TTTC-ACATGTTTCAAT-TAGTGCCAAGAGAGGAGAACATGATTGTTGATGAGCTAACAAAATTG
64 ATTCAACATATTTCAGTAT-GTGCCAAGAGAGGAGAACATGGTTGCTGATGAGCTAGCAAAATTG
* * * *
3298669 ACATGAAACTTACTCTTTAGATTTTACTTGA-TTCAGTATG
128 ACATGAAACTTACCCTTCAGATTCTACCTGATTTCAGTATG
* * * *
3298709 TGCCAAGAGAGGAAAACATGATTGCTGATGAGCTAGCGAAATTGACATGAAACTAACCCTTCAAA
1 TGCCAAGAGAGG-GAACATGGTTGCTGATGAGCTAGCAAAATTGACATGAAACTTACCCTTCAAA
* * * * * * *
3298774 TACCACATATTTTAATATGTGCCAAGAGAGGATAATATGGTTACTGATGAGCTA-CAAAAATTGA
65 TTCAACATATTTCAGTATGTGCCAAGAGAGGAGAACATGGTTGCTGATGAGCTAGC-AAAATTGA
* * *
3298838 AAAGAAACTTACCCTTCAGATTCTACCTGCTTT-AGTATG
129 CATGAAACTTACCCTTCAGATTCTACCTGATTTCAGTATG
* * * * * *
3298877 TGCCAAGAGAGGGAACATGTTTGATAAAGAGCTGGCAAAATTGACATGAAACATACCCTTCAAAT
1 TGCCAAGAGAGGGAACATGGTTGCTGATGAGCTAGCAAAATTGACATGAAACTTACCCTTCAAAT
* * * * * * *
3298942 TCAACTTGTTTTAGTATGTGCCAAAAGAGGAGAACATGGTT-CTTGATGATCTAGTAAAATTGAT
66 TCAACATATTTCAGTATGTGCCAAGAGAGGAGAACATGGTTGC-TGATGAGCTAGCAAAATTGAC
* * * *
3299006 ATTAAACTTACCCTTTAGATTC-CCCTG-TTTTAGTATG
130 ATGAAACTTACCCTTCAGATTCTACCTGATTTCAGTATG
* * * ** * *
3299043 TGCTAAGAGAGGTGAACATGGTTGGTGATGAGCTAGAAAAATTGGTATGGAACTTACCTTTCAAA
1 TGCCAAGAGAGG-GAACATGGTTGCTGATGAGCTAGCAAAATTGACATGAAACTTACCCTTCAAA
* * * * * * *
3299108 TTCCACCTATTTCAATATATGCCAAGAGAGGAAAACATGGTTG-TCGATGAGCTAGAAAAATTAA
65 TTCAACATATTTCAGTATGTGCCAAGAGAGGAGAACATGGTTGCT-GATGAGCTAGCAAAATTGA
* * * *
3299172 CATGGAACTTAGCCTTTAGATTCCACCT-ATTTCAGTATG
129 CATGAAACTTACCCTTCAGATTCTACCTGATTTCAGTATG
* * * * *
3299211 TGCCAACAGAGGGGAACGTGGTTTCT-ATGAGCTAGAAAAATTGACATGAAACTTA-CCTGTCAG
1 TGCCAAGAGA-GGGAACATGGTTGCTGATGAGCTAGCAAAATTGACATGAAACTTACCCT-TCAA
* ** * * * *
3299274 ATTCCACATATTTCAAAATGTGCCAAGAAAGGAAAACATGTTTGC-GAATGAGCTAGAAAAATT-
64 ATTCAACATATTTCAGTATGTGCCAAGAGAGGAGAACATGGTTGCTG-ATGAGCTAGCAAAATTG
* * * * * *
3299337 ATCATGAAACCTACCTTTAAGATT-TCACTTG-TTTCAATATA
128 A-CATGAAACTTACCCTTCAGATTCT-ACCTGATTTCAGTATG
* * * * *
3299378 TGCCAAGAGAAGAGAACATGGTTGTTGATGAGCTAGCAAAATTGACATAAAACTTACCCTTTAGA
1 TGCCAAGAG-AGGGAACATGGTTGCTGATGAGCTAGCAAAATTGACATGAAACTTACCCTTCAAA
* * * * * *
3299443 TTCCAA-TTGTTTTAGTATATACCAAGAGAGGGGAACATGGTTGCTGATGAGCTAGCAAAATTGA
65 TT-CAACATATTTCAGTATGTGCCAAGAGAGGAGAACATGGTTGCTGATGAGCTAGCAAAATTGA
* * * * *
3299507 TATGAAAATTACCTTTCAAATTGC-ACCTG-TTTCAATATG
129 CATGAAACTTACCCTTCAGATT-CTACCTGATTTCAGTATG
* * * * * * *
3299546 AGCCAAAAGAGTAGAACATGGTT-TTCGATGAGCTAGTAAAATAGACATGAAACTTACCCTTTAA
1 TGCCAAGAGAG-GGAACATGGTTGCT-GATGAGCTAGCAAAATTGACATGAAACTTACCCTTCAA
* * * * * * * * * *
3299610 ACTCTACATACTTCGGTATTTTCTAAGAGAGGGGAACATGGTTGCTCATGAGCTAGCAAAATTGG
64 ATTCAACATATTTCAGTATGTGCCAAGAGAGGAGAACATGGTTGCTGATGAGCTAGCAAAATTGA
* * * * *
3299675 TATGAAACTTATCCTTCAGGTTCCACCT-ATTTCAGTATA
129 CATGAAACTTACCCTTCAGATTCTACCTGATTTCAGTATG
* * * *
3299714 TGCCAAGAGAGGGAAGCATGGTTGCTGATGAGCTAGCTAAATTGATATGTAATTTACCCTTCAAA
1 TGCCAAGAGAGGGAA-CATGGTTGCTGATGAGCTAGCAAAATTGACATGAAACTTACCCTTCAAA
* * * * * * *
3299779 TTCCACCTTTTTCAGTATATTCC-AGTAGATTG-GAACATGGTTGCTGATGAGCTACCAAAATTG
65 TTCAACATATTTCAGTATGTGCCAAG-AGA-GGAGAACATGGTTGCTGATGAGCTAGCAAAATTG
* *
3299842 ACATGAAACTTACCCTTCAGATT-TCACATG-TTTTAGTATG
128 ACATGAAACTTACCCTTCAGATTCT-ACCTGATTTCAGTATG
* ** * *** * ** * *
3299882 TGCCAAGGGAAAAGAGCATGGGCACTGATGAGATATAAAAATTAACATGAAACTTACCCTTTAGA
1 TGCCAAGAG-AGGGAACATGGTTGCTGATGAGCTAGCAAAATTGACATGAAACTTACCCTTCA-A
* * * * * * * * *
3299947 TTTC-ACCTATATT-AATATTTGCCAAGAGAGGGGAACTTAGTTGCTGATGAGCTAGCAAAACTA
64 ATTCAACATAT-TTCAGTATGTGCCAAGAGAGGAGAACATGGTTGCTGATGAGCTAGCAAAATTG
* * * *
3300010 ACATG------ACCCTTAATATTCCACCT-ATTTCAGT-TAA
128 ACATGAAACTTACCCTTCAGATTCTACCTGATTTCAGTAT-G
* * ** * * * * *
3300044 AGCCAAGTGAGGAGAACATTATTGCTGATAAGCTAACAAAATTAACATGAAACTTACTCTTCAGA
1 TGCCAAGAGAGG-GAACATGGTTGCTGATGAGCTAGCAAAATTGACATGAAACTTACCCTTCAAA
* * * * * * * * *
3300109 TTCTACCTATTTTAATATGTGCCAAGAGAGGAAAACATGATTACTGATGAGCTAGCCAAGTTGAC
65 TTCAACATATTTCAGTATGTGCCAAGAGAGGAGAACATGGTTGCTGATGAGCTAGCAAAATTGAC
3300174 ATGAAACTTA--C--CA-A--CT---TG-TTTCAGTATG
130 ATGAAACTTACCCTTCAGATTCTACCTGATTTCAGTATG
* * * * * * * *
3300202 TGCCAAAAAAAAGGAACATGGTTGATGATGAGTTAGAAAAATTGAAAT-AAACTTACCCTTCAGA
1 TGCC-AAGAGAGGGAACATGGTTGCTGATGAGCTAGCAAAATTGACATGAAACTTACCCTTCAAA
* * * * * * * * * * *
3300266 TTCCACCTGTTTTAATATATGCCGAGAGAGGATAATATGGTTACTGATGAGCTAGAAAAATTGAC
65 TTCAACATATTTCAGTATGTGCCAAGAGAGGAGAACATGGTTGCTGATGAGCTAGCAAAATTGAC
* * * * * *
3300331 ATGTAACTTTCCCTTCAAATTCCACCAG-TTTCAGTGTG
130 ATGAAACTTACCCTTCAGATTCTACCTGATTTCAGTATG
* * *
3300369 AGCCAAAAGTGGAGAACATGGTTGCTGATGAGCTAGCAAAATTGACATGAAACTTACCCTTCATA
1 TGCCAAGAGAGG-GAACATGGTTGCTGATGAGCTAGCAAAATTGACATGAAACTTACCCTTCA-A
* * * * * * * * * * *
3300434 TTTCATC-TGTTTCAGTAAGTGTCAAAATAGGATAATATGGTTTCTGATGAGCTAGAAAAATTGA
64 ATTCAACATATTTCAGTATGTGCCAAGAGAGGAGAACATGGTTGCTGATGAGCTAGCAAAATTGA
* ** *
3300498 CATGAAACCTACTATTCAG-TCTCTACCTG--TTCACTATG
129 CATGAAACTTACCCTTCAGAT-TCTACCTGATTTCAGTATG
* * ** *
3300536 TGCCAAGAGAGGAGAACATGATTTCTGATGAGCTAGTTAAATTGAAATGAAACTTA--C--C--A
1 TGCCAAGAGAGG-GAACATGGTTGCTGATGAGCTAGCAAAATTGACATGAAACTTACCCTTCAAA
* * *
3300595 -T----A-AGTTCA-AATGTGCCAAGAGAAGG-GAACATGGTTGATGATGAGCTAGC-AAATTGA
65 TTCAACATATTTCAGTATGTGCCAAGAG-AGGAGAACATGGTTGCTGATGAGCTAGCAAAATTGA
* *
3300651 CATG-AACTTACCCTTCAGATT-TCACATG-TTTTAGTATG
129 CATGAAACTTACCCTTCAGATTCT-ACCTGATTTCAGTATG
** *** * * * * *
3300689 TGTGAAGAGATAATAACATGTTTACCGATGAGCTAGCAAAACTGACATGAAACTTACCCTTCATA
1 TGCCAAGAGA-GGGAACATGGTTGCTGATGAGCTAGCAAAATTGACATGAAACTTACCCTTCAAA
* * * * * *
3300754 TTCTACATGTTTCAGTATGTGCCAAGGGAGGGGAACATGGTTGCTGATGAGATAGCAAAATTGAA
65 TTCAACATATTTCAGTATGTGCCAAGAGAGGAGAACATGGTTGCTGATGAGCTAGCAAAATTGAC
* **
3300819 ATGAAACTTACCCTTCAAATTCTATATG-TTTCAGTATG
130 ATGAAACTTACCCTTCAGATTCTACCTGATTTCAGTATG
* * * * * *
3300857 TGCCAAAAGAGGAGATCATAGTTGCTGATGAGCTAGTAAAATTTACATGAAACTTACCCTTTATA
1 TGCCAAGAGAGG-GAACATGGTTGCTGATGAGCTAGCAAAATTGACATGAAACTTACCCTTCA-A
* * * * *
3300922 TTCCACTTACCCTTTATATTCCACTTGTTTCAGTATGTTCTAAGAGAGG-GTAACATGTTTGTTG
64 ----A-TT---C---A-A---CA--TATTTCAGTATGTGCCAAGAGAGGAG-AACATGGTTGCTG
* ** ** * * * ** * *
3300986 ATGAGCTAACAAAATTGGTATGGGACTTACCATT-TGTATTCAAAAT-ATTTTAGTATA
111 ATGAGCTAGCAAAATTGACATGAAACTTACCCTTCAG-ATTCTACCTGATTTCAGTATG
** * * * * * *
3301043 TGAGAAGAGAGGGGAACATGGTTGTTGGTGAGCTAGCAAAATTGACATGGAATTTATCCTTCAGA
1 TGCCAAGAGA-GGGAACATGGTTGCTGATGAGCTAGCAAAATTGACATGAAACTTACCCTTCAAA
* * * ** * * * * * * * *
3301108 TTCCACCTGTTTTTGTATGTTCTAAGGGAGAGGGGAAAATGATTTCGGATGAGCTAGTAAAATTG
65 TTCAACATATTTCAGTATGTGCCAA--GAGAGGAGAACATGGTTGCTGATGAGCTAGCAAAATTG
* * * * *
3301173 ACATGAAACTTACACTTTAGATTCTGCTTG-TTTTAGTATG
128 ACATGAAACTTACCCTTCAGATTCTACCTGATTTCAGTATG
* * * * * *
3301213 TGCCAAGCGAGGGGAACATGGTTACTGATGAGCTAG-TAAATTGACATGGAACTTACCCTTTAGA
1 TGCCAAGAGA-GGGAACATGGTTGCTGATGAGCTAGCAAAATTGACATGAAACTTACCCTTCAAA
** * * *
3301277 TTCCTCCAGT-TTT-AGTATGTGCCAAGAGAGGATAACGTGGGGTTACTGATGAGCTAGCAAAAT
65 TT-CAACA-TATTTCAGTATGTGCCAAGAGAGGAGAACAT--GGTTGCTGATGAGCTAGCAAAAT
3301340 TGACATGAAACTTA
126 TGACATGAAACTTA
3301354 TGTTAGAGTA
Statistics
Matches: 2309, Mismatches: 534, Indels: 274
0.74 0.17 0.09
Matches are distributed among these distances:
151 1 0.00
152 16 0.01
153 62 0.03
154 27 0.01
155 8 0.00
157 79 0.03
158 37 0.02
159 8 0.00
160 1 0.00
161 10 0.00
162 115 0.05
163 2 0.00
164 3 0.00
165 11 0.00
166 71 0.03
167 541 0.23
168 988 0.43
169 100 0.04
170 90 0.04
171 3 0.00
173 2 0.00
174 2 0.00
177 2 0.00
180 2 0.00
181 2 0.00
184 2 0.00
185 1 0.00
186 121 0.05
187 2 0.00
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (168 bp):
TGCCAAGAGAGGGAACATGGTTGCTGATGAGCTAGCAAAATTGACATGAAACTTACCCTTCAAAT
TCAACATATTTCAGTATGTGCCAAGAGAGGAGAACATGGTTGCTGATGAGCTAGCAAAATTGACA
TGAAACTTACCCTTCAGATTCTACCTGATTTCAGTATG
Found at i:3300772 original size:84 final size:84
Alignment explanation
Indices: 3300604--3300917 Score: 323
Period size: 84 Copynumber: 3.8 Consensus size: 84
3300594 ATAAGTTCAA
* *
3300604 ATGTGCCAAGAGA-AGGGAACATGGTTGA-TGATGAGCTAGC-AAATTGACATG-AACTTACCCT
1 ATGTGCCAAGAGAGA-AGAACATGGTT-ACCGATGAGCTAGCAAAATTGACATGAAACTTACCCT
* *
3300665 TCAGATT-TCACATGTTTTAGT
64 TCAAATTCT-ACATGTTTCAGT
** * * * *
3300686 ATGTGTGAAGAGATAATAACATGTTTACCGATGAGCTAGCAAAACTGACATGAAACTTACCCTTC
1 ATGTGCCAAGAGAGAAGAACATGGTTACCGATGAGCTAGCAAAATTGACATGAAACTTACCCTTC
*
3300751 ATATTCTACATGTTTCAGT
66 AAATTCTACATGTTTCAGT
* ** * * * *
3300770 ATGTGCCAAGGGAGGGGAACATGGTTGCTGATGAGATAGCAAAATTGAAATGAAACTTACCCTTC
1 ATGTGCCAAGAGAGAAGAACATGGTTACCGATGAGCTAGCAAAATTGACATGAAACTTACCCTTC
*
3300835 AAATTCTATATGTTTCAGT
66 AAATTCTACATGTTTCAGT
* * * * * * * *
3300854 ATGTGCCAAAAGAGGAGATCATAGTTGCTGATGAGCTAGTAAAATTTACATGAAACTTACCCTT
1 ATGTGCCAAGAGAGAAGAACATGGTTACCGATGAGCTAGCAAAATTGACATGAAACTTACCCTT
3300918 TATATTCCAC
Statistics
Matches: 194, Mismatches: 33, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
81 1 0.01
82 30 0.15
83 11 0.06
84 151 0.78
85 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (84 bp):
ATGTGCCAAGAGAGAAGAACATGGTTACCGATGAGCTAGCAAAATTGACATGAAACTTACCCTTC
AAATTCTACATGTTTCAGT
Found at i:3300929 original size:18 final size:18
Alignment explanation
Indices: 3300908--3300947 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
3300898 TTTACATGAA
3300908 ACTTACCCTTTATATTCC
1 ACTTACCCTTTATATTCC
3300926 ACTTACCCTTTATATTCC
1 ACTTACCCTTTATATTCC
3300944 ACTT
1 ACTT
3300948 GTTTCAGTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.23, C:0.33, G:0.00, T:0.45
Consensus pattern (18 bp):
ACTTACCCTTTATATTCC
Found at i:3301077 original size:186 final size:186
Alignment explanation
Indices: 3300740--3301091 Score: 398
Period size: 186 Copynumber: 1.9 Consensus size: 186
3300730 CTGACATGAA
* *
3300740 ACTTACCCTTCATATTCTACATGTTTCAGTATGTGCCAAGGGAGGGGAACATGGTTGCTGATGAG
1 ACTTACCCTTCATATTCCACATGTTTCAGTATGTGCCAAGAGAGGGGAACATGGTTGCTGATGAG
* * * * * * *
3300805 ATAGCAAAATTGAAATGAAACTTACCCTTCAAATTCTATATGTTTCAGTATGTGCCAAAAGAGGA
66 ATAACAAAATTGAAATGAAACTTACCATTCAAATTCAAAATATTTCAGTATATGACAAAAGAGGA
* * *
3300870 GATCATAGTTGCTGATGAGCTAGTAAAATTTACATGAAACTTACCCTTTATATTCC
131 GAACATAGTTGCTGATGAGCTAGCAAAATTGACATGAAACTTACCCTTTATATTCC
* * * * * * *
3300926 ACTTACCCTTTATATTCCACTTGTTTCAGTATGTTCTAAGAGAGGGTAACATGTTTGTTGATGAG
1 ACTTACCCTTCATATTCCACATGTTTCAGTATGTGCCAAGAGAGGGGAACATGGTTGCTGATGAG
* ** ** *** * * * *
3300991 CTAACAAAATTGGTATGGGACTTACCATTTGTATTCAAAATATTTTAGTATATGAGAAGAGAGGG
66 ATAACAAAATTGAAATGAAACTTACCATTCAAATTCAAAATATTTCAGTATATGACAAAAGAGGA
* * *
3301056 GAACATGGTTGTTGGTGAGCTAGCAAAATTGACATG
131 GAACATAGTTGCTGATGAGCTAGCAAAATTGACATG
3301092 GAATTTATCC
Statistics
Matches: 132, Mismatches: 34, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
186 132 1.00
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.33
Consensus pattern (186 bp):
ACTTACCCTTCATATTCCACATGTTTCAGTATGTGCCAAGAGAGGGGAACATGGTTGCTGATGAG
ATAACAAAATTGAAATGAAACTTACCATTCAAATTCAAAATATTTCAGTATATGACAAAAGAGGA
GAACATAGTTGCTGATGAGCTAGCAAAATTGACATGAAACTTACCCTTTATATTCC
Found at i:3301274 original size:83 final size:83
Alignment explanation
Indices: 3300926--3301353 Score: 322
Period size: 84 Copynumber: 5.1 Consensus size: 83
3300916 TTTATATTCC
* * * * * * **
3300926 ACTTACCCTTTATATTC-CACTTGTTTCAGTATGTTCTAAGAGAGGGTAACATGTTTGTTGATGA
1 ACTTACCCTTTAGATTCTC-C-TGTTTTAGTATGTGCCAAGAGAGGGGAACATGGTTACTGATGA
* ** **
3300990 GCTAACAAAATTGGTATGGG
64 GCTAGCAAAATTGACATGAA
* *** * * ** ** *
3301010 ACTTACCATTT-GTATTCAAAATATTTTAGTATATGAGAAGAGAGGGGAACATGGTTGTTGGTGA
1 ACTTACCCTTTAG-ATTC-TCCTGTTTTAGTATGTGCCAAGAGAGGGGAACATGGTTACTGATGA
*
3301074 GCTAGCAAAATTGACATGGA
64 GCTAGCAAAATTGACATGAA
* * * * * * * * * * *
3301094 ATTTATCCTTCAGATTCCACCTGTTTTTGTATGTTCTAAGGGAGAGGGGAAAATGATTTCGGATG
1 ACTTACCCTTTAGATT-CTCCTGTTTTAGTATGTGCCAA--GAGAGGGGAACATGGTTACTGATG
*
3301159 AGCTAGTAAAATTGACATGAA
63 AGCTAGCAAAATTGACATGAA
* * *
3301180 ACTTACACTTTAGATTCTGCTTGTTTTAGTATGTGCCAAGCGAGGGGAACATGGTTACTGATGAG
1 ACTTACCCTTTAGATTCT-CCTGTTTTAGTATGTGCCAAGAGAGGGGAACATGGTTACTGATGAG
* *
3301245 CTAG-TAAATTGACATGGA
65 CTAGCAAAATTGACATGAA
* ** *
3301263 ACTTACCCTTTAGATTCCTCCAGTTTTAGTATGTGCCAAGAGAGGATAACGTGGGGTTACTGATG
1 ACTTACCCTTTAGATT-CTCCTGTTTTAGTATGTGCCAAGAGAGGGGAACAT--GGTTACTGATG
3301328 AGCTAGCAAAATTGACATGAA
63 AGCTAGCAAAATTGACATGAA
3301349 ACTTA
1 ACTTA
3301354 TGTTAGAGTA
Statistics
Matches: 270, Mismatches: 62, Indels: 22
0.76 0.18 0.06
Matches are distributed among these distances:
83 54 0.20
84 114 0.42
85 20 0.07
86 82 0.30
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (83 bp):
ACTTACCCTTTAGATTCTCCTGTTTTAGTATGTGCCAAGAGAGGGGAACATGGTTACTGATGAGC
TAGCAAAATTGACATGAA
Found at i:3302531 original size:89 final size:90
Alignment explanation
Indices: 3302373--3302540 Score: 286
Period size: 89 Copynumber: 1.9 Consensus size: 90
3302363 ATTTAATTCC
*
3302373 AATTAATTAAATATAGATTTAATTAATTTAAAATAATAAAATCCCTAATATGATTAGGGTAACTT
1 AATTAATTAAATATAGATTTAATTAATTTAAAATAATAAAATCCCTAATATGATTAGGGTAACTC
3302438 GGATATAAAATGATTATTAAATTTT
66 GGATATAAAATGATTATTAAATTTT
* *
3302463 AATTAATT-AA-ATAGATTTAATTAATTTGAAATAATAAAAATCCCTAATGTGATTAGGGTAACT
1 AATTAATTAAATATAGATTTAATTAATTTAAAATAAT-AAAATCCCTAATATGATTAGGGTAACT
3302526 CGGATATAAAATGAT
65 CGGATATAAAATGAT
3302541 GTGTTAGGTC
Statistics
Matches: 74, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
88 24 0.32
89 42 0.57
90 8 0.11
ACGTcount: A:0.46, C:0.05, G:0.11, T:0.38
Consensus pattern (90 bp):
AATTAATTAAATATAGATTTAATTAATTTAAAATAATAAAATCCCTAATATGATTAGGGTAACTC
GGATATAAAATGATTATTAAATTTT
Found at i:3303378 original size:84 final size:84
Alignment explanation
Indices: 3303165--3303704 Score: 458
Period size: 84 Copynumber: 6.5 Consensus size: 84
3303155 GGAGATAAAG
* * * * *
3303165 ATGGTTGCTGATGAGCTAGCAAATTTGACATGGAATTTACCCTTCAGATTCCACCTGTTTCAATA
1 ATGGTTGCTGATGAGCTAGCAAAATTAACATGGAACTTACCCTTCAGATTCCACATGTTTCAGTA
3303230 TGTGCCAAGAGAGAGTGGAAC
66 TGTGCCAAGAGAGA--GGAAC
* * * * * *
3303251 ATGGTTGATGATGAGCTAGCATATTTGACATGAAACTTACCCTTCAGATTCCACATGTTTTAGTA
1 ATGGTTGCTGATGAGCTAGCAAAATTAACATGGAACTTACCCTTCAGATTCCACATGTTTCAGTA
3303316 TGTGCCAAGAGAGAGGAAC
66 TGTGCCAAGAGAGAGGAAC
* * * *
3303335 ATGATTCCTGATGAGCTAGCAAAAGTAACATGGAACTTGCCCTTCAGATTCCACATGTTTCAGTA
1 ATGGTTGCTGATGAGCTAGCAAAATTAACATGGAACTTACCCTTCAGATTCCACATGTTTCAGTA
* *
3303400 TATTCCAAGAGAGA-GAAC
66 TGTGCCAAGAGAGAGGAAC
* * * *
3303418 ATGGTTGTTGATGAGCTAGCAAAATTGAA-ATGGAACTTACCCTTTAGATTCCATC-TTTTTTAG
1 ATGGTTGCTGATGAGCTAGCAAAATT-AACATGGAACTTACCCTTCAGATTCCA-CATGTTTCAG
* * *
3303481 TATGT--TAAGAGAG-GATAAT
64 TATGTGCCAAGAGAGAG-GAAC
** * * * * ** * * * *
3303500 ATGGTTATTAATGAGCTAGCAGAATTGACATGAAACTTACTTTTCAGATTCTACCTATTTCAATA
1 ATGGTTGCTGATGAGCTAGCAAAATTAACATGGAACTTACCCTTCAGATTCCACATGTTTCAGTA
** * *
3303565 TGCACCAAGAGAGAGGGAT
66 TGTGCCAAGAGAGAGGAAC
* * * *
3303584 ATGGTTGCTGATAAGCTAG-AGAAATTGAA-ATGAAACCTACCTTTCA-AGTTCCACAAT-TTT-
1 ATGGTTGCTGATGAGCTAGCA-AAATT-AACATGGAACTTACCCTTCAGA-TTCCAC-ATGTTTC
*
3303644 AGTATGTGCCAAAAGAGCA-GAAC
62 AGTATGTGCCAAGAGAG-AGGAAC
* * *
3303667 TTGGTTGCTGATGAGCTA-CTAAAATTGACATGAAACTT
1 ATGGTTGCTGATGAGCTAGC-AAAATTAACATGGAACTT
3303705 GTGTAACACA
Statistics
Matches: 370, Mismatches: 67, Indels: 37
0.78 0.14 0.08
Matches are distributed among these distances:
81 9 0.02
82 54 0.15
83 104 0.28
84 128 0.35
85 3 0.01
86 72 0.19
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (84 bp):
ATGGTTGCTGATGAGCTAGCAAAATTAACATGGAACTTACCCTTCAGATTCCACATGTTTCAGTA
TGTGCCAAGAGAGAGGAAC
Found at i:3303384 original size:267 final size:263
Alignment explanation
Indices: 3302909--3303402 Score: 605
Period size: 267 Copynumber: 1.9 Consensus size: 263
3302899 AACATAGTTC
*
3302909 CTGATGATCTAGCAAATTAACATGAAAATTACCCGTCAAATTCCACCTATTTCAATTGGTGCCAA
1 CTGATGAGCTAGCAAATTAACATGAAAATTACCCGTCAAATTCCACCTATTTCAATTGGTGCCAA
* * * * * *
3302974 AATAGAAGAACATGGTTACTGATGAGCTAGTAAAATTGACATGAAACTTACATTTAGATTTCGCC
66 AAGAGAAGAACATGGTTACTGATGAGCTAGCAAAATTGACATGAAACTTACATTCAGATTCCACA
* * * * * * * *** *
3303039 TCTTTTGGTATGTTCTAAGAGAGGGGAACATGATTTCTAATAAGTTAGCAAAATTGGTATGTAAC
131 TCTTTTAGTATGTGCCAAGAGAGAGGAACATGATTCCTAATAAGCTAGCAAAAGTAACATGGAAC
*
3303104 TTACCCTTCAGATTCCACCTATTTCAGTATATGATTCCACCTGTTTCAAATGGAGATAAAGATGG
196 TTACCCTTCAGATTCCACATATTTCAGTATATGATTCCACCTGTTTCAAATGGAGATAAAGATGG
3303169 TTG
261 TTG
* * * * * *
3303172 CTGATGAGCTAGCAAATTTGACATGGAATTTACCCTTCAGATTCCACCTGTTTCAATAT-GTGCC
1 CTGATGAGCTAGCAAA-TTAACATGAAAATTACCCGTCAAATTCCACCTATTTCAAT-TGGTGCC
** * * *
3303236 AAGAGAGAGTGGAACATGGTTGA-TGATGAGCTAGCATATTTGACATGAAACTTACCCTTCAGAT
64 AA-A-AGAGAAGAACATGGTT-ACTGATGAGCTAGCAAAATTGACATGAAACTTA-CATTCAGAT
* * *
3303300 TCCACATGTTTTAGTATGTGCCAAGAGAGAGGAACATGATTCCTGATGAGCTAGCAAAAGTAACA
125 TCCACATCTTTTAGTATGTGCCAAGAGAGAGGAACATGATTCCTAATAAGCTAGCAAAAGTAACA
* *
3303365 TGGAACTTGCCCTTCAGATTCCACATGTTTCAGTATAT
190 TGGAACTTACCCTTCAGATTCCACATATTTCAGTATAT
3303403 TCCAAGAGAG
Statistics
Matches: 190, Mismatches: 35, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
263 15 0.08
264 41 0.22
265 2 0.01
266 41 0.22
267 91 0.48
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (263 bp):
CTGATGAGCTAGCAAATTAACATGAAAATTACCCGTCAAATTCCACCTATTTCAATTGGTGCCAA
AAGAGAAGAACATGGTTACTGATGAGCTAGCAAAATTGACATGAAACTTACATTCAGATTCCACA
TCTTTTAGTATGTGCCAAGAGAGAGGAACATGATTCCTAATAAGCTAGCAAAAGTAACATGGAAC
TTACCCTTCAGATTCCACATATTTCAGTATATGATTCCACCTGTTTCAAATGGAGATAAAGATGG
TTG
Found at i:3303638 original size:249 final size:251
Alignment explanation
Indices: 3303165--3303704 Score: 578
Period size: 249 Copynumber: 2.2 Consensus size: 251
3303155 GGAGATAAAG
* *
3303165 ATGGTTGCTGATGAGCTAGCAAATTTGACATGGAATTTACCCTTCAGATTCCACCTGTTTCAATA
1 ATGGTTGCTGATGAGCTAGCAAAATTGACATGGAACTTACCCTTCAGATTCCACCTGTTTCAATA
* * *
3303230 TGTGCCAAGAGAGAGTGGAACATGGTTGATGATGAGCTAGCATATTTGACATGAAACTTACCCTT
66 TGT-CCAAGAGAGAGT-GAACATGGTTGATAATGAGCTAGCAGAATTGACATGAAACTTACCCTT
* * * ** *
3303295 CAGATTCCACATGTTTTAGTATGTGCCAAGAGAGAGGAACATGATTCCTGATGAGCTAGCAAAAG
129 CAGATTCCACATATTTCAATATGCACCAAGAGAGAGGAACATGATTCCTGATAAGCTAGCAAAAG
* * * * *
3303360 TAACATGGAACTTGCCCTTCAGATTCCAC-ATGTTTCAGTATATTCCAAGAGAG-AGAAC
194 TAACATGAAACCTACCCTTCAGATTCCACAAT-TTT-AGTATATGCCAAAAGAGCAGAAC
* * * * * * *
3303418 ATGGTTGTTGATGAGCTAGCAAAATTGAAATGGAACTTACCCTTTAGATTCCATCTTTTTTAGTA
1 ATGGTTGCTGATGAGCTAGCAAAATTGACATGGAACTTACCCTTCAGATTCCACCTGTTTCAATA
* * **
3303483 TGT-TAAGAGAG-GAT-AATATGGTT-ATTAATGAGCTAGCAGAATTGACATGAAACTTACTTTT
66 TGTCCAAGAGAGAG-TGAACATGGTTGA-TAATGAGCTAGCAGAATTGACATGAAACTTACCCTT
* * * * * *
3303544 CAGATTCTACCTATTTCAATATGCACCAAGAGAGAGGGATATGGTTGCTGATAAGCTAG-AGAAA
129 CAGATTCCACATATTTCAATATGCACCAAGAGAGAGGAACATGATTCCTGATAAGCTAGCA-AAA
* * *
3303608 TTGAA-ATGAAACCTACCTTTCA-AGTTCCACAATTTTAGTATGTGCCAAAAGAGCAGAAC
193 GT-AACATGAAACCTACCCTTCAGA-TTCCACAATTTTAGTATATGCCAAAAGAGCAGAAC
* *
3303667 TTGGTTGCTGATGAGCTA-CTAAAATTGACATGAAACTT
1 ATGGTTGCTGATGAGCTAGC-AAAATTGACATGGAACTT
3303705 GTGTAACACA
Statistics
Matches: 239, Mismatches: 40, Indels: 20
0.80 0.13 0.07
Matches are distributed among these distances:
248 18 0.08
249 149 0.62
250 5 0.02
251 8 0.03
253 59 0.25
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (251 bp):
ATGGTTGCTGATGAGCTAGCAAAATTGACATGGAACTTACCCTTCAGATTCCACCTGTTTCAATA
TGTCCAAGAGAGAGTGAACATGGTTGATAATGAGCTAGCAGAATTGACATGAAACTTACCCTTCA
GATTCCACATATTTCAATATGCACCAAGAGAGAGGAACATGATTCCTGATAAGCTAGCAAAAGTA
ACATGAAACCTACCCTTCAGATTCCACAATTTTAGTATATGCCAAAAGAGCAGAAC
Found at i:3304616 original size:23 final size:23
Alignment explanation
Indices: 3304586--3304640 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 23
3304576 AATATGTTAG
3304586 GAGTACACAA-ATACTAAGTACAA
1 GAGTACACAAGATACTAA-TACAA
* *
3304609 GAGTACACAATGGTACTAATACGA
1 GAGTACACAA-GATACTAATACAA
3304633 GAGTACAC
1 GAGTACAC
3304641 GAATGCCCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 10 0.36
24 12 0.43
25 6 0.21
ACGTcount: A:0.45, C:0.18, G:0.18, T:0.18
Consensus pattern (23 bp):
GAGTACACAAGATACTAATACAA
Found at i:3304640 original size:24 final size:26
Alignment explanation
Indices: 3304597--3304645 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 26
3304587 AGTACACAAA
3304597 TACTAAGTACAAGAGTACAC-AATGG
1 TACTAAGTACAAGAGTACACGAATGG
*
3304622 TACTAA-TACGAGAGTACACGAATG
1 TACTAAGTACAAGAGTACACGAATG
3304646 CCCTAATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 12 0.55
25 10 0.45
ACGTcount: A:0.43, C:0.16, G:0.20, T:0.20
Consensus pattern (26 bp):
TACTAAGTACAAGAGTACACGAATGG
Found at i:3306912 original size:83 final size:83
Alignment explanation
Indices: 3306816--3307437 Score: 266
Period size: 83 Copynumber: 7.7 Consensus size: 83
3306806 AGTATATACC
* ** * * * *
3306816 GAGAGAGGAAACATGGTTGCCGATGAGCTAGCAAAGTTGACATGGAATTCACATTTTAGATTCTA
1 GAGAGAAG-AACATGGTTGTTGATGAGCTAGCAAA-TTGACATGAAATTCACACTTCAGATTCCA
* *
3306881 C-TTTTTCAGTATGTGCCAA
64 CATGTTTCAGTATGCGCCAA
* * *
3306900 GAGAGAAGAACATGGTTGTTGATGAGCTAGCAAATTGACATGAAATTTACCCTTCATATTCCACA
1 GAGAGAAGAACATGGTTGTTGATGAGCTAGCAAATTGACATGAAATTCACACTTCAGATTCCACA
*
3306965 TGTTTCAGTATGCGTCAA
66 TGTTTCAGTATGCGCCAA
*
3306983 GAGA-AAGAACATGGTT-TTGATGAGCTAGCAAAATTCACATG--A-T---ACTT---A--CCAC
1 GAGAGAAGAACATGGTTGTTGATGAGCTAGC-AAATTGACATGAAATTCACACTTCAGATTCCAC
* * * * *
3307035 CTATTTTAGTATGTGTCAA
65 ATGTTTCAGTATGCGCCAA
* * * * * *
3307054 GAGA-AGGGGATATGGTTGTTGATGAGCTAGAAAAGTTTACATG------A-ACTT-AAATTCCA
1 GAGAGA-AGAACATGGTTGTTGATGAGCTAGCAAA-TTGACATGAAATTCACACTTCAGATTCCA
* * *
3307110 CCTGTTTCAATATGTGCCAA
64 CATGTTTCAGTATGCGCCAA
* ** * * * * * * *
3307130 AAGAGGGGAATATGGTTGCTGATGAACTAGTAAAATTGACATGAAACTT-ATATTTTAGATTCCA
1 GAGAGAAGAACATGGTTGTTGATGAGCTAG-CAAATTGACATGAAA-TTCACACTTCAGATTCCA
* * *
3307194 C-TATTTCAGTATGTTG-TAA
64 CATGTTTCAGTATG-CGCCAA
* * * * * * *
3307213 GAGATG-GGGACATGGTT-CTGATGAGCTAGTAAAATTGACATGGAATTTATC-CTTCATATTCC
1 GAGA-GAAGAACATGGTTGTTGATGAGCTAG-CAAATTGACATGAAATTCA-CACTTCAGATTCC
* *
3307275 ACATATTTCAGTATGTGCCAA
63 ACATGTTTCAGTATGCGCCAA
** * * * * *
3307296 GAGAGGGGAACATGGTTGCTGATAAGCTAGCGAAATTGACATGAACTT-ACCCTTCA-ATTTTCA
1 GAGAGAAGAACATGGTTGTTGATGAGCTAGC-AAATTGACATGAAATTCACACTTCAGA-TTCCA
* * *
3307359 CATGTTTTAGTATGTGCTAA
64 CATGTTTCAGTATGCGCCAA
* * * * * * * *
3307379 -A-AGAAGGGAACATGGTTGCTGACGAGATAGAAAATTGTCATGAAGTTTACCCTTCAGAT
1 GAGAGAA--GAACATGGTTGTTGATGAGCTAGCAAATTGACATGAAATTCACACTTCAGAT
3307438 ACATGTATCA
Statistics
Matches: 437, Mismatches: 66, Indels: 71
0.76 0.11 0.12
Matches are distributed among these distances:
71 24 0.05
72 15 0.03
73 20 0.05
74 1 0.00
76 53 0.12
77 4 0.01
79 1 0.00
80 1 0.00
81 17 0.04
82 103 0.24
83 154 0.35
84 44 0.10
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.31
Consensus pattern (83 bp):
GAGAGAAGAACATGGTTGTTGATGAGCTAGCAAATTGACATGAAATTCACACTTCAGATTCCACA
TGTTTCAGTATGCGCCAA
Found at i:3307096 original size:73 final size:73
Alignment explanation
Indices: 3306967--3307180 Score: 204
Period size: 76 Copynumber: 2.9 Consensus size: 73
3306957 ATTCCACATG
* * * *
3306967 TTTCAGTATGCGTCAAGAGAA-AGAACATGGTT-TTGATGAGCTAGCAAAATTCACATGATACTT
1 TTTCAGTATGTGTCAAGAGAAGGGGATATGGTTGTTGATGAGCTAGCAAAATTCACATGA-ACTT
3307030 A-CCACCTA
65 ATCCACCTA
* *
3307038 TTTTAGTATGTGTCAAGAGAAGGGGATATGGTTGTTGATGAGCTAG-AAAAGTTTACATGAACTT
1 TTTCAGTATGTGTCAAGAGAAGGGGATATGGTTGTTGATGAGCTAGCAAAA-TTCACATGAACTT
*
3307102 AAATTCCACCTG
65 --A-TCCACCTA
* * * * * * *
3307114 TTTCAATATGTGCCAAAAG-AGGGGAATATGGTTGCTGATGAACTAGTAAAATTGACATGAAACT
1 TTTCAGTATGTGTCAAGAGAAGGGG-ATATGGTTGTTGATGAGCTAGCAAAATTCACATG-AACT
3307178 TAT
64 TAT
3307181 ATTTTAGATT
Statistics
Matches: 119, Mismatches: 14, Indels: 17
0.79 0.09 0.11
Matches are distributed among these distances:
71 19 0.16
72 16 0.13
73 20 0.17
74 2 0.02
75 6 0.05
76 47 0.39
77 9 0.08
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.30
Consensus pattern (73 bp):
TTTCAGTATGTGTCAAGAGAAGGGGATATGGTTGTTGATGAGCTAGCAAAATTCACATGAACTTA
TCCACCTA
Found at i:3307373 original size:166 final size:166
Alignment explanation
Indices: 3307104--3307586 Score: 389
Period size: 166 Copynumber: 2.9 Consensus size: 166
3307094 ATGAACTTAA
* * * *
3307104 ATTCCACCTGTTTCAATATGTGCCAAAAGAGGGGAATATGGTTGCTGATGAACTAGTAAAATTGA
1 ATTCCACATATTTCAATATGTGCCAAAAGAGGGGAACATGGTTGCTGATGAACTAGCAAAATTGA
* * * * * *
3307169 CATGAAACTTATATTTTAGATTCCACTATTTCAGTATGTTG-TAAGAGATGGGGACATGGTT-CT
66 CATGAAACTTACACTTCAGATTCCACTATTTCAGTATG-TGCTAAAAGAAGGGAACATGGTTGCT
* * *
3307232 GATGAGCTAGTAAAATTGACATGGAA-TTTATCCTTCAT
130 GACGAGATAG-AAAATTGACAT-GAAGTTTACCCTTCAT
* * *
3307270 ATTCCACATATTTCAGTATGTGCCAAGAGAGGGGAACATGGTTGCTGAT-AAGCTAGCGAAATTG
1 ATTCCACATATTTCAATATGTGCCAAAAGAGGGGAACATGGTTGCTGATGAA-CTAGCAAAATTG
* * * *
3307334 ACATG-AACTTACCCTTCA-ATTTTCACATGTTTTAGTATGTGCTAAAAGAAGGGAACATGGTTG
65 ACATGAAACTTACACTTCAGA-TTCCAC-TATTTCAGTATGTGCTAAAAGAAGGGAACATGGTTG
* *
3307397 CTGACGAGATAGAAAATTGTCATGAAGTTTACCCTTCAG
128 CTGACGAGATAGAAAATTGACATGAAGTTTACCCTTCAT
* * * * * * * * * * *
3307436 A-T--ACATGTATCAAAATGTGTCAAGAGATGGGAACATAGTT-TTCGACGAACTAGTAAAAATG
1 ATTCCACATATTTCAATATGTGCCAAAAGAGGGGAACATGGTTGCT-GATGAACTAGCAAAATTG
* * * * * * *
3307497 ACATG-AACTTACCCTTTAGATTCCATCTGTTTCAGTAAGTG-TCAAAA-TAGGATAATATGGTT
65 ACATGAAACTTACACTTCAGATTCCA-CTATTTCAGTATGTGCT-AAAAGAAGG-GAACATGGTT
** *
3307559 ATTGACGAGCTAGCAAAATTGACATGAA
127 GCTGACGAGATAG-AAAATTGACATGAA
3307587 ACCTATTTTT
Statistics
Matches: 259, Mismatches: 45, Indels: 28
0.78 0.14 0.08
Matches are distributed among these distances:
162 5 0.02
163 97 0.37
164 18 0.07
165 22 0.08
166 107 0.41
167 10 0.04
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (166 bp):
ATTCCACATATTTCAATATGTGCCAAAAGAGGGGAACATGGTTGCTGATGAACTAGCAAAATTGA
CATGAAACTTACACTTCAGATTCCACTATTTCAGTATGTGCTAAAAGAAGGGAACATGGTTGCTG
ACGAGATAGAAAATTGACATGAAGTTTACCCTTCAT
Found at i:3308037 original size:83 final size:80
Alignment explanation
Indices: 3307760--3308235 Score: 357
Period size: 83 Copynumber: 5.7 Consensus size: 80
3307750 TATGTGCCAC
* * * *
3307760 GTATGTGCCAAAAGAGGAG-ATATGGTGCTGATGAGCTAGTAAAATTGACATGAAACTTACCCTT
1 GTATGTGCCAAGAGAGGGGAACATGGT--TGATGAGCTAGTAAAATTGACATGGAACTTACCCTT
*
3307824 TAGATTCCACCTGTTTCA
64 CAGATTCCACC-GTTTCA
* * * * * * ** *
3307842 TTATGTGCTAAGAGAGGGGAACATGATTGTTGATG-AAGAAAAATTGGTATAGAACTTACCCTTC
1 GTATGTGCCAAGAGAGGGGAACATGGTTGATGA-GCTAGTAAAATTGACATGGAACTTACCCTTC
* * *
3307906 GGATT-TACC-TATATTA
65 AGATTCCACCGT-T-TCA
* * * *
3307922 GTGTATGCCAAGAGAGGGAAACATGGTTGTTGATGAGCTAGTAAAATTGACATGGAATTTACCCT
1 GTATGTGCCAAGAGAGGGGAACAT-G--GTTGATGAGCTAGTAAAATTGACATGGAACTTACCCT
3307987 TCAGATTCCACTCGTTTCA
63 TCAGATTCCAC-CGTTTCA
* * *
3308006 GTATGTGCGAATAGAGAGGGGAACATGGTTGATGATGAGCTAGTAAAATTGACATGAAATTTACC
1 GTATGTGC-CA-AGAGAGGGGAACATGG-T--TGATGAGCTAGTAAAATTGACATGGAACTTACC
* * * *
3308071 CTTTAAATTTCACCTGTTTTA
61 CTTCAGATTCCACC-GTTTCA
* * * **
3308092 GTATGTTCCAAGAGAGAGGAACATGATTCCTGATGAGCTAACAAAATTGACATGGAACTTACCCT
1 GTATGTGCCAAGAGAGGGGAACATG-GT--TGATGAGCTAGTAAAATTGACATGGAACTTACCCT
**
3308157 TCAGATTCCATTGTTTCA
63 TCAGATTCCACCGTTTCA
** * * * *
3308175 ACATGTACCAACAGAGGGGAACATGGTTGATTATGAGCTAGCAAAATTGACATGAAACTTA
1 GTATGTGCCAAGAGAGGGGAACATGGTTG---ATGAGCTAGTAAAATTGACATGGAACTTA
3308236 TTTAAGTATG
Statistics
Matches: 307, Mismatches: 66, Indels: 41
0.74 0.16 0.10
Matches are distributed among these distances:
78 1 0.00
79 1 0.00
80 26 0.08
81 32 0.10
82 18 0.06
83 91 0.30
84 64 0.21
85 6 0.02
86 68 0.22
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (80 bp):
GTATGTGCCAAGAGAGGGGAACATGGTTGATGAGCTAGTAAAATTGACATGGAACTTACCCTTCA
GATTCCACCGTTTCA
Found at i:3308140 original size:170 final size:167
Alignment explanation
Indices: 3307787--3308235 Score: 507
Period size: 170 Copynumber: 2.7 Consensus size: 167
3307777 AGATATGGTG
* * * *
3307787 CTGATGAGCTAGTAAAATTGACATGAAACTTACCCTTTAGATTCCAC-CTGTTTCATTATGTGCT
1 CTGATGAGCTAGTAAAATTGACATGGAACTTACCCTTCAGATTCCACTC-GTTTCAATATGTGCA
* * ** **
3307851 AAGAGAGGGGAACATGATTGTTGATGA---AGAAAAATTGGTAT-AGAACTTACCCTTCGGATTT
65 AAGAGAGGGGAACATGGTTGATGATGAGCTAGAAAAATTGACATGA-AACTTACCCTTCAAATTT
* * *
3307912 ACCTATATTAGTGTATGCCAAGAGAGGGAAACATGGTTG
129 ACCTATATTAGTATATGCCAAGAGAGGGAAACATGATTC
* * *
3307951 TTGATGAGCTAGTAAAATTGACATGGAATTTACCCTTCAGATTCCACTCGTTTCAGTATGTGCGA
1 CTGATGAGCTAGTAAAATTGACATGGAACTTACCCTTCAGATTCCACTCGTTTCAATATGTGC-A
* * *
3308016 ATAGAGAGGGGAACATGGTTGATGATGAGCTAGTAAAATTGACATGAAATTTACCCTTTAAATTT
65 A-AGAGAGGGGAACATGGTTGATGATGAGCTAGAAAAATTGACATGAAACTTACCCTTCAAATTT
* * * *
3308081 CACCTGTTTTAGTATGTTCCAAGAGAGAGG-AACATGATTC
129 -ACCTATATTAGTATATGCCAAGAGAG-GGAAACATGATTC
** * * * *
3308121 CTGATGAGCTAACAAAATTGACATGGAACTTACCCTTCAGATTCCA-TTGTTTCAACATGTACCA
1 CTGATGAGCTAGTAAAATTGACATGGAACTTACCCTTCAGATTCCACTCGTTTCAATATGTGCAA
* * *
3308185 ACAGAGGGGAACATGGTTGATTATGAGCTAGCAAAATTGACATGAAACTTA
66 AGAGAGGGGAACATGGTTGATGATGAGCTAGAAAAATTGACATGAAACTTA
3308236 TTTAAGTATG
Statistics
Matches: 241, Mismatches: 35, Indels: 15
0.83 0.12 0.05
Matches are distributed among these distances:
164 56 0.23
165 2 0.01
166 24 0.10
167 47 0.20
168 1 0.00
169 37 0.15
170 72 0.30
171 2 0.01
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (167 bp):
CTGATGAGCTAGTAAAATTGACATGGAACTTACCCTTCAGATTCCACTCGTTTCAATATGTGCAA
AGAGAGGGGAACATGGTTGATGATGAGCTAGAAAAATTGACATGAAACTTACCCTTCAAATTTAC
CTATATTAGTATATGCCAAGAGAGGGAAACATGATTC
Found at i:3309752 original size:29 final size:29
Alignment explanation
Indices: 3309656--3309752 Score: 70
Period size: 29 Copynumber: 3.3 Consensus size: 29
3309646 CATATTGATG
* * *
3309656 AGTTTAGGGATTAAACTAGAATATTCAAA
1 AGTTTAAGGATCAAATTAGAATATTCAAA
* * * * * *
3309685 ATTTTGAGGACCAACTTAGAAATAGGATCATA
1 AGTTTAAGGATCAAATTAG-AATA--TTCAAA
*
3309717 A-TTTAAGGATGAAATTAGAATATTCAAA
1 AGTTTAAGGATCAAATTAGAATATTCAAA
3309745 AGTTTAAG
1 AGTTTAAG
3309753 ATCTGATTTA
Statistics
Matches: 49, Mismatches: 15, Indels: 8
0.68 0.21 0.11
Matches are distributed among these distances:
28 5 0.10
29 18 0.37
30 8 0.16
31 13 0.27
32 5 0.10
ACGTcount: A:0.44, C:0.07, G:0.18, T:0.31
Consensus pattern (29 bp):
AGTTTAAGGATCAAATTAGAATATTCAAA
Done.