Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008719.1 Hibiscus syriacus cultivar Beakdansim tig00111774_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: 4817204
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 18
Found at i:2489545 original size:95 final size:94
Alignment explanation
Indices: 2489367--2489574 Score: 299
Period size: 95 Copynumber: 2.2 Consensus size: 94
2489357 TCAATACTGC
* * * * * * *
2489367 TACCCTGGTACCGATACTTCTATACTATGGTATTGATACCCTTTCCGGTATCGATACCAATTCTA
1 TACCATGGTATCGATACTACCATAATATGGTATCGATACCCATTCCGGTATCGATACCAATTCTA
* *
2489432 GCTTCGATGTTGTCTGGTATCGATACCCT
66 GATTCGACGTTGTCTGGTATCGATACCCT
*
2489461 TACCATGGTATCGATACTACCATAATATGGTATCGATACCCCATTCCGGTATCGATACCAATTTT
1 TACCATGGTATCGATACTACCATAATATGGTATCGATA-CCCATTCCGGTATCGATACCAATTCT
* *
2489526 TGATTCGACGTTTTCTGGTATCGATACCCT
65 AGATTCGACGTTGTCTGGTATCGATACCCT
2489556 TACCATGGTATCGATACTA
1 TACCATGGTATCGATACTA
2489575 ACTCATCAAT
Statistics
Matches: 101, Mismatches: 12, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
94 32 0.32
95 69 0.68
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.35
Consensus pattern (94 bp):
TACCATGGTATCGATACTACCATAATATGGTATCGATACCCATTCCGGTATCGATACCAATTCTA
GATTCGACGTTGTCTGGTATCGATACCCT
Found at i:2489605 original size:21 final size:21
Alignment explanation
Indices: 2489579--2489665 Score: 108
Period size: 21 Copynumber: 4.2 Consensus size: 21
2489569 ATACTAACTC
2489579 ATCAATATCGATACTGATTGA
1 ATCAATATCGATACTGATTGA
2489600 ATCAATATCGATACT-ACCTT--
1 ATCAATATCGATACTGA--TTGA
**
2489620 ATCGGTATCGATACTGATTGA
1 ATCAATATCGATACTGATTGA
*
2489641 ATCAATATCGATACTGATTCA
1 ATCAATATCGATACTGATTGA
2489662 ATCA
1 ATCA
2489666 GCTGATTCAA
Statistics
Matches: 56, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
19 2 0.04
20 14 0.25
21 38 0.68
22 2 0.04
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (21 bp):
ATCAATATCGATACTGATTGA
Found at i:2489613 original size:41 final size:41
Alignment explanation
Indices: 2489564--2489655 Score: 148
Period size: 41 Copynumber: 2.2 Consensus size: 41
2489554 CTTACCATGG
2489564 TATCGATACTAACTCATCAATATCGATACTGATTGAATCAA
1 TATCGATACTAACTCATCAATATCGATACTGATTGAATCAA
* * **
2489605 TATCGATACTACCTTATCGGTATCGATACTGATTGAATCAA
1 TATCGATACTAACTCATCAATATCGATACTGATTGAATCAA
2489646 TATCGATACT
1 TATCGATACT
2489656 GATTCAATCA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 47 1.00
ACGTcount: A:0.35, C:0.20, G:0.12, T:0.34
Consensus pattern (41 bp):
TATCGATACTAACTCATCAATATCGATACTGATTGAATCAA
Found at i:2489672 original size:13 final size:13
Alignment explanation
Indices: 2489654--2489679 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2489644 AATATCGATA
2489654 CTGATTCAATCAG
1 CTGATTCAATCAG
2489667 CTGATTCAATCAG
1 CTGATTCAATCAG
2489680 TATCGATACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (13 bp):
CTGATTCAATCAG
Found at i:2494363 original size:55 final size:55
Alignment explanation
Indices: 2494278--2494525 Score: 376
Period size: 55 Copynumber: 4.6 Consensus size: 55
2494268 GGTTATTCGC
* *
2494278 AAACTCATTGTGAA-TTCGT-AGGTTGCACACATAGTGCCAATACGAAAATTCAT
1 AAACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACGAAAATTCAT
* *
2494331 AAACTCATTATGAATTTTGTGGGGTTGCACACATAGTGCCAATACGGAAATTCAT
1 AAACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACGAAAATTCAT
*
2494386 AAACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACGGAAATTCAT
1 AAACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACGAAAATTCAT
* * * * *
2494441 AAAATTATTATGAATTTTGTGGGGTTGCACA-ATAGTGCCATTATGAAAATTCAT
1 AAACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACGAAAATTCAT
*
2494495 AAACTCATTATGAATTTCGTGGGGTTACACA
1 AAACTCATTATGAATTTCGTGGGGTTGCACA
2494526 TATATACATT
Statistics
Matches: 178, Mismatches: 15, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
53 13 0.07
54 51 0.29
55 114 0.64
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (55 bp):
AAACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACGAAAATTCAT
Found at i:2495233 original size:20 final size:21
Alignment explanation
Indices: 2495190--2495233 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
2495180 AAATTGACTT
* **
2495190 ACATCCATAAATCTCCTTTTA
1 ACATCCATAAATCTCCATAGA
2495211 ACATCCA-AAATCTCCATAGA
1 ACATCCATAAATCTCCATAGA
2495231 ACA
1 ACA
2495234 CTTAAAACTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.41, C:0.30, G:0.02, T:0.27
Consensus pattern (21 bp):
ACATCCATAAATCTCCATAGA
Found at i:2498487 original size:170 final size:171
Alignment explanation
Indices: 2498198--2498545 Score: 680
Period size: 170 Copynumber: 2.0 Consensus size: 171
2498188 CTACAATGTT
*
2498198 AGAAAAATAGATGTCTTACACATTCCATAAGACTCTTCCAGCTCATTTCTTTGAATTATTGTTGG
1 AGAAACATAGATGTCTTACACATTCCATAAGACTCTTCCAGCTCATTTCTTTGAATTATTGTTGG
2498263 CAAACTTAATGAGTGATTTCAGAGACCTTATGGTAATGAGAAAGACAATAGAATATGCAACTCAA
66 CAAACTTAATGAGTGATTTCAGAGACCTTATGGTAATGAGAAAGACAATAGAATATGCAACTCAA
2498328 AAAGAAAAATTGAGCTATGCACCTAGAAGTCTAGCCAATCA
131 AAAGAAAAATTGAGCTATGCACCTAGAAGTCTAGCCAATCA
2498369 AGAAACATAGATGTCTTACACATTCCATAAGACTCTTCCAGCTCATTTC-TTGAATTATTGTTGG
1 AGAAACATAGATGTCTTACACATTCCATAAGACTCTTCCAGCTCATTTCTTTGAATTATTGTTGG
2498433 CAAACTTAATGAGTGATTTCAGAGACCTTATGGTAATGAGAAAGACAATAGAATATGCAACTCAA
66 CAAACTTAATGAGTGATTTCAGAGACCTTATGGTAATGAGAAAGACAATAGAATATGCAACTCAA
2498498 AAAGAAAAATTGAGCTATGCACCTAGAAGTCTAGCCAATCA
131 AAAGAAAAATTGAGCTATGCACCTAGAAGTCTAGCCAATCA
2498539 AGAAACA
1 AGAAACA
2498546 AGGAAGGAGA
Statistics
Matches: 176, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
170 128 0.73
171 48 0.27
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.27
Consensus pattern (171 bp):
AGAAACATAGATGTCTTACACATTCCATAAGACTCTTCCAGCTCATTTCTTTGAATTATTGTTGG
CAAACTTAATGAGTGATTTCAGAGACCTTATGGTAATGAGAAAGACAATAGAATATGCAACTCAA
AAAGAAAAATTGAGCTATGCACCTAGAAGTCTAGCCAATCA
Found at i:2499107 original size:3 final size:3
Alignment explanation
Indices: 2499099--2499192 Score: 167
Period size: 3 Copynumber: 32.3 Consensus size: 3
2499089 TATAGTAAAT
2499099 ATA ATA ATA ATA ATA ATA AT- ATA ATA ATA ATA ATA ATA ATA AT- ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
2499145 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT- ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
2499192 A
1 A
2499193 ATTACACTTA
Statistics
Matches: 88, Mismatches: 0, Indels: 6
0.94 0.00 0.06
Matches are distributed among these distances:
2 6 0.07
3 82 0.93
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:2499192 original size:23 final size:23
Alignment explanation
Indices: 2499099--2499188 Score: 164
Period size: 23 Copynumber: 3.9 Consensus size: 23
2499089 TATAGTAAAT
2499099 ATAATAATAATAATAATAATATA
1 ATAATAATAATAATAATAATATA
2499122 ATAATAATAATAATAATAATATA
1 ATAATAATAATAATAATAATATA
2499145 ATAATAATAATAATAATAATAATA
1 ATAATAATAATAATAATAAT-ATA
2499169 ATAATAAT-ATAATAATAATA
1 ATAATAATAATAATAATAATA
2499189 ATAAATTACA
Statistics
Matches: 66, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
22 1 0.02
23 54 0.82
24 11 0.17
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (23 bp):
ATAATAATAATAATAATAATATA
Found at i:2503805 original size:14 final size:14
Alignment explanation
Indices: 2503788--2503816 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
2503778 ACGGTCAACG
2503788 GTCGGGTCGGGTCA
1 GTCGGGTCGGGTCA
2503802 GTCGGGTCGGGTCA
1 GTCGGGTCGGGTCA
2503816 G
1 G
2503817 ACCGGTCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.07, C:0.21, G:0.52, T:0.21
Consensus pattern (14 bp):
GTCGGGTCGGGTCA
Found at i:2503841 original size:10 final size:9
Alignment explanation
Indices: 2503811--2503890 Score: 61
Period size: 9 Copynumber: 8.3 Consensus size: 9
2503801 AGTCGGGTCG
*
2503811 GGTCAGACC
1 GGTCAAACC
2503820 GGTCAAACC
1 GGTCAAACC
*
2503829 GGTTCATACC
1 GG-TCAAACC
2503839 GGTCAAACC
1 GGTCAAACC
*
2503848 GGTTCGAACC
1 GG-TCAAACC
*
2503858 GTTCAGAACC
1 GGTCA-AACC
* *
2503868 GGTTGAAAATC
1 GG-T-CAAACC
2503879 GGTCAAACC
1 GGTCAAACC
2503888 GGT
1 GGT
2503891 TTCCAGCCCT
Statistics
Matches: 55, Mismatches: 11, Indels: 10
0.72 0.14 0.13
Matches are distributed among these distances:
9 27 0.49
10 21 0.38
11 6 0.11
12 1 0.02
ACGTcount: A:0.28, C:0.28, G:0.26, T:0.19
Consensus pattern (9 bp):
GGTCAAACC
Found at i:2503841 original size:19 final size:18
Alignment explanation
Indices: 2503817--2503891 Score: 78
Period size: 19 Copynumber: 3.9 Consensus size: 18
2503807 GTCGGGTCAG
2503817 ACCGGTCAAACCGGTTCA
1 ACCGGTCAAACCGGTTCA
2503835 TACCGGTCAAACCGGTTCGA
1 -ACCGGTCAAACCGGTTC-A
* *
2503855 ACCGTTCAGAACCGGTTGAAA
1 ACCGGTCA-AACCGGTT--CA
*
2503876 ATCGGTCAAACCGGTT
1 ACCGGTCAAACCGGTT
2503892 TCCAGCCCTC
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
19 24 0.50
20 17 0.35
21 7 0.15
ACGTcount: A:0.28, C:0.28, G:0.24, T:0.20
Consensus pattern (18 bp):
ACCGGTCAAACCGGTTCA
Found at i:2510357 original size:10 final size:9
Alignment explanation
Indices: 2510327--2510396 Score: 77
Period size: 9 Copynumber: 7.3 Consensus size: 9
2510317 GGTCGGGTTG
*
2510327 GGTCAGACC
1 GGTCAAACC
2510336 GGTCAAACC
1 GGTCAAACC
*
2510345 GGTTCATACC
1 GG-TCAAACC
2510355 GGTCAAACC
1 GGTCAAACC
2510364 GGTCAGAACC
1 GGTCA-AACC
*
2510374 GGTTGAAAACC
1 GG-T-CAAACC
2510385 GGTCAAACC
1 GGTCAAACC
2510394 GGT
1 GGT
2510397 TTCTAGCCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
9 29 0.56
10 15 0.29
11 7 0.13
12 1 0.02
ACGTcount: A:0.29, C:0.29, G:0.27, T:0.16
Consensus pattern (9 bp):
GGTCAAACC
Found at i:2510374 original size:19 final size:18
Alignment explanation
Indices: 2510327--2510396 Score: 77
Period size: 19 Copynumber: 3.7 Consensus size: 18
2510317 GGTCGGGTTG
*
2510327 GGTCAGACCGGTCAAACC
1 GGTCAAACCGGTCAAACC
*
2510345 GGTTCATACCGGTCAAACC
1 GG-TCAAACCGGTCAAACC
*
2510364 GGTCAGAACCGGTTGAAAACC
1 GGTCA-AACCGG-T-CAAACC
2510385 GGTCAAACCGGT
1 GGTCAAACCGGT
2510397 TTCTAGCCCT
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
18 5 0.11
19 23 0.51
20 7 0.16
21 10 0.22
ACGTcount: A:0.29, C:0.29, G:0.27, T:0.16
Consensus pattern (18 bp):
GGTCAAACCGGTCAAACC
Found at i:2510395 original size:20 final size:21
Alignment explanation
Indices: 2510359--2510397 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
2510349 CATACCGGTC
2510359 AAACCGGTCAGAACCGGTTGA
1 AAACCGGTCAGAACCGGTTGA
2510380 AAACCGGTCA-AACCGGTT
1 AAACCGGTCAGAACCGGTT
2510398 TCTAGCCCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.33, C:0.26, G:0.26, T:0.15
Consensus pattern (21 bp):
AAACCGGTCAGAACCGGTTGA
Found at i:2512658 original size:17 final size:18
Alignment explanation
Indices: 2512622--2512659 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
2512612 TATTATTTAT
*
2512622 TTTAATTTATTTAATATC
1 TTTAATTTAATTAATATC
*
2512640 TTTAA-TTAATTAATCTC
1 TTTAATTTAATTAATATC
2512657 TTT
1 TTT
2512660 TTTTTGTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTAATTTAATTAATATC
Found at i:2512969 original size:17 final size:17
Alignment explanation
Indices: 2512949--2512982 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2512939 TCTTATTTCC
*
2512949 TTTTATTTGATTTTTAT
1 TTTTATTTGAATTTTAT
*
2512966 TTTTTTTTGAATTTTAT
1 TTTTATTTGAATTTTAT
2512983 GTATTTTCTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.00, G:0.06, T:0.76
Consensus pattern (17 bp):
TTTTATTTGAATTTTAT
Found at i:2516898 original size:2 final size:2
Alignment explanation
Indices: 2516893--2516927 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
2516883 AAAATAATAA
2516893 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2516928 CTTTTTGAGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2517054 original size:17 final size:17
Alignment explanation
Indices: 2517032--2517064 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
2517022 GTTCTCATGT
2517032 TTTTTAACTTT-ATTTTC
1 TTTTTAA-TTTGATTTTC
2517049 TTTTTAATTTGATTTT
1 TTTTTAATTTGATTTT
2517065 GACTATTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.18, C:0.06, G:0.03, T:0.73
Consensus pattern (17 bp):
TTTTTAATTTGATTTTC
Found at i:2525736 original size:19 final size:19
Alignment explanation
Indices: 2525712--2525752 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
2525702 GGTTCTCTCC
2525712 TCACTCACGAAATGATGCT
1 TCACTCACGAAATGATGCT
2525731 TCACTCACGAAATGATGCT
1 TCACTCACGAAATGATGCT
2525750 TCA
1 TCA
2525753 AGATGAAGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.27
Consensus pattern (19 bp):
TCACTCACGAAATGATGCT
Found at i:2530111 original size:20 final size:20
Alignment explanation
Indices: 2530072--2530122 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
2530062 CTCTTTCTAG
*
2530072 GTATCGATACT-TTAGCATA
1 GTATCGATACTAATAGCATA
*
2530091 GTATCGATACTAATGGCATA
1 GTATCGATACTAATAGCATA
2530111 GTATCGATACTA
1 GTATCGATACTA
2530123 CTTTAATAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 11 0.38
20 18 0.62
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (20 bp):
GTATCGATACTAATAGCATA
Found at i:2535548 original size:54 final size:54
Alignment explanation
Indices: 2535466--2535802 Score: 385
Period size: 54 Copynumber: 6.2 Consensus size: 54
2535456 ACCAAATAGG
* * * * * *
2535466 CACTAACTGTGTAATTCACATAATTCATCATATGTTGATCAGTAACTGTTTCGA
1 CACTAAGTGTGCAATTCACAGAATTCATCATATGTTGATGAATAACCGTTTCGA
* *
2535520 CACTAAGTGTGCAATTCTCAGAATTCATCATATGTTGATGAATAACCATTTCAGA
1 CACTAAGTGTGCAATTCACAGAATTCATCATATGTTGATGAATAACCGTTTC-GA
* *
2535575 -ACTAAGTGTACAATTCACAGAATTCATCATATGTTGATGAATAATCGTTTCGA
1 CACTAAGTGTGCAATTCACAGAATTCATCATATGTTGATGAATAACCGTTTCGA
*
2535628 CA-TCAAGTGTGCAATTCA-AGGAATTCATCATATGTTTATGAATAACCGTTTCGA
1 CACT-AAGTGTGCAATTCACA-GAATTCATCATATGTTGATGAATAACCGTTTCGA
* * * * *
2535682 CACTATGTGTGCAATTCACAGAATTTATCATATGTTTATGAATAACCGTTTTGG
1 CACTAAGTGTGCAATTCACAGAATTCATCATATGTTGATGAATAACCGTTTCGA
* * * * * * * *
2535736 CACTATGTGTGCAATCCAC-GAAATTCATAATATGTTTATGAATGACCGTATGGG
1 CACTAAGTGTGCAATTCACAG-AATTCATCATATGTTGATGAATAACCGTTTCGA
*
2535790 CACTACGTGTGCA
1 CACTAAGTGTGCA
2535803 TTGCAAAGAA
Statistics
Matches: 250, Mismatches: 26, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
53 5 0.02
54 241 0.96
55 4 0.02
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.34
Consensus pattern (54 bp):
CACTAAGTGTGCAATTCACAGAATTCATCATATGTTGATGAATAACCGTTTCGA
Found at i:2537644 original size:54 final size:54
Alignment explanation
Indices: 2537580--2537815 Score: 337
Period size: 54 Copynumber: 4.4 Consensus size: 54
2537570 AGTAATCAAT
* * * * *
2537580 TTCATCATATGTTGATGAATAACTGTTTCGACACTATGTTTGCAATTTATAGAA
1 TTCATCATATGTTGATGAATAACCGTTTCGACACTAAGTGTGCAATTCACAGAA
* *
2537634 TTCATCATATGTTAATGAATAACCGTTTCAACACTAAGTGTGCAATTCACAGAA
1 TTCATCATATGTTGATGAATAACCGTTTCGACACTAAGTGTGCAATTCACAGAA
* *
2537688 TTCATCATATGTTGATGAATAACCGTTTTGGCACTAAGTGTGCAATTCACAGAA
1 TTCATCATATGTTGATGAATAACCGTTTCGACACTAAGTGTGCAATTCACAGAA
* * * *
2537742 TTCATCATACGTTGATGAATAACCGTTTCGACACTATGTGTGCAATCCACAAAA
1 TTCATCATATGTTGATGAATAACCGTTTCGACACTAAGTGTGCAATTCACAGAA
* *
2537796 TTCATAATATGTTTATGAAT
1 TTCATCATATGTTGATGAAT
2537816 GATCTTATGG
Statistics
Matches: 162, Mismatches: 20, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 162 1.00
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (54 bp):
TTCATCATATGTTGATGAATAACCGTTTCGACACTAAGTGTGCAATTCACAGAA
Found at i:2541199 original size:15 final size:15
Alignment explanation
Indices: 2541179--2541207 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
2541169 AATTTCTTTT
2541179 TCGTTATCTAAACCC
1 TCGTTATCTAAACCC
2541194 TCGTTATCTAAACC
1 TCGTTATCTAAACC
2541208 AAAGGTATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.31, G:0.07, T:0.34
Consensus pattern (15 bp):
TCGTTATCTAAACCC
Found at i:2541786 original size:12 final size:13
Alignment explanation
Indices: 2541769--2541801 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
2541759 ATGGGCAAAA
*
2541769 TTTGAAAACTAT-
1 TTTGAAAACAATG
2541781 TTTGAAAACAATG
1 TTTGAAAACAATG
2541794 TTTGAAAA
1 TTTGAAAA
2541802 ATTATAATAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.45, C:0.06, G:0.12, T:0.36
Consensus pattern (13 bp):
TTTGAAAACAATG
Found at i:2544375 original size:12 final size:12
Alignment explanation
Indices: 2544358--2544382 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2544348 ATGATGATTC
2544358 TCCAACGTCATG
1 TCCAACGTCATG
2544370 TCCAACGTCATG
1 TCCAACGTCATG
2544382 T
1 T
2544383 ACATTTACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.32, G:0.16, T:0.28
Consensus pattern (12 bp):
TCCAACGTCATG
Found at i:2545651 original size:17 final size:17
Alignment explanation
Indices: 2545631--2545664 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
2545621 AACTTCGACT
*
2545631 CCGGTCTTGATTCGATG
1 CCGGTCTCGATTCGATG
2545648 CCGGTCTCGATTCGATG
1 CCGGTCTCGATTCGATG
2545665 ACCGTCAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.12, C:0.26, G:0.29, T:0.32
Consensus pattern (17 bp):
CCGGTCTCGATTCGATG
Found at i:2550647 original size:23 final size:23
Alignment explanation
Indices: 2550612--2550662 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
2550602 AGAATTGATA
2550612 CCCCC-TTGAAGGGGAACCGATC
1 CCCCCTTTGAAGGGGAACCGATC
* *
2550634 CCCCCTTTGCAGGGGAACCGATT
1 CCCCCTTTGAAGGGGAACCGATC
2550657 CCCCCT
1 CCCCCT
2550663 AGGGGAATCG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 5 0.19
23 21 0.81
ACGTcount: A:0.18, C:0.41, G:0.24, T:0.18
Consensus pattern (23 bp):
CCCCCTTTGAAGGGGAACCGATC
Found at i:2550682 original size:20 final size:19
Alignment explanation
Indices: 2550621--2550686 Score: 62
Period size: 23 Copynumber: 3.3 Consensus size: 19
2550611 ACCCCCTTGA
2550621 AGGGGAACCGATCCCCCCTTT
1 AGGGGAACCGATCCCCCC--T
*
2550642 GCAGGGGAACCGATTCCCCCT
1 --AGGGGAACCGATCCCCCCT
*
2550663 AGGGGAATCGATACCCCCCT
1 AGGGGAACCGAT-CCCCCCT
2550683 -GGGG
1 AGGGG
2550687 TTCTGGTTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
19 15 0.38
20 6 0.15
21 1 0.03
23 17 0.44
ACGTcount: A:0.20, C:0.35, G:0.30, T:0.15
Consensus pattern (19 bp):
AGGGGAACCGATCCCCCCT
Found at i:2565531 original size:117 final size:116
Alignment explanation
Indices: 2565288--2565517 Score: 293
Period size: 117 Copynumber: 2.0 Consensus size: 116
2565278 AACTTTCAAA
* * *
2565288 TCGAAATTTTCTTTTTCAAAGCTTTCAAATTTCATTTTTGAGAGCTCTAAATCATTCTTCAATAT
1 TCGAAAATTTCTTTTTCAAAGCTTTCAAATTTCATTTTTGAAAGCTCTAAATCATTCTTCAACAT
* * * **
2565353 TTCATTTTGATTTTCAAAATCCATTTTAGTTTCTAGAAGAAGTTTGTTTAAT
66 TTCATTTTGATTTACAAAAT-CATTTTAGTTTCTAAAAGAAGATCATTTAAT
* * * * *
2565405 TCGAAAATTTCTTTTTCAAAGTTTTCAGATTTCATTTTTGAAAGCTCTAACTCCTTTTTCAACAT
1 TCGAAAATTTCTTTTTCAAAGCTTTCAAATTTCATTTTTGAAAGCTCTAAATCATTCTTCAACAT
*
2565470 TTCATTTTGATTTACAAGTAT-ATTTTAGCTTTC-AAAAGAAGATCATTT
66 TTCATTTTGATTTACAA-AATCATTTTAG-TTTCTAAAAGAAGATCATTT
2565518 TTTGCTATAA
Statistics
Matches: 97, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
116 18 0.19
117 77 0.79
118 2 0.02
ACGTcount: A:0.30, C:0.14, G:0.09, T:0.47
Consensus pattern (116 bp):
TCGAAAATTTCTTTTTCAAAGCTTTCAAATTTCATTTTTGAAAGCTCTAAATCATTCTTCAACAT
TTCATTTTGATTTACAAAATCATTTTAGTTTCTAAAAGAAGATCATTTAAT
Found at i:2567631 original size:21 final size:21
Alignment explanation
Indices: 2567602--2567656 Score: 65
Period size: 23 Copynumber: 2.5 Consensus size: 21
2567592 CTTCCACGAG
*
2567602 ATTTGTTTCTCTTGAAACAATA
1 ATTT-TTTCTCTTGAAACAACA
*
2567624 ATTTTTTCTCCCTTGAAATAACA
1 ATTTTTTCT--CTTGAAACAACA
2567647 ATTTTTTCTC
1 ATTTTTTCTC
2567657 CCATGAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
21 6 0.21
22 4 0.14
23 19 0.66
ACGTcount: A:0.27, C:0.18, G:0.05, T:0.49
Consensus pattern (21 bp):
ATTTTTTCTCTTGAAACAACA
Found at i:2567673 original size:22 final size:23
Alignment explanation
Indices: 2567614--2567666 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
2567604 TTGTTTCTCT
* * *
2567614 TGAAACAATAATTTTTTCTCCCT
1 TGAAATAACAATTTTTTCTCCCA
2567637 TGAAATAACAATTTTTTCTCCCA
1 TGAAATAACAATTTTTTCTCCCA
2567660 TGAAATA
1 TGAAATA
2567667 TCATTTTCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.36, C:0.19, G:0.06, T:0.40
Consensus pattern (23 bp):
TGAAATAACAATTTTTTCTCCCA
Found at i:2572449 original size:64 final size:63
Alignment explanation
Indices: 2572381--2572609 Score: 219
Period size: 64 Copynumber: 3.6 Consensus size: 63
2572371 TTGGAACACT
* ***
2572381 TGATGCATCGGTGCACCAAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCC
1 TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTTTG-AAAATAGCC
** * **
2572445 TGATGCATCGATGCATGGCTTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTC
1 TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATAGCC
* * * * * *
2572509 AGAGTGCATCGATGCATGGAGAGTGCATCGGTGCATGGAATGCATTCGATG-TTCAATTAAT-TC
1 TGA-TGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAA--AATAGC
*
2572572 A
63 C
* *
2572573 TCGATGCATCGATGCATGGACTGATGCATCGGTGCAT
1 T-GATGCATCGATGCATGGAGTG-TGCATCGATGCAT
2572610 ACCTTTGAAT
Statistics
Matches: 137, Mismatches: 22, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
63 4 0.03
64 70 0.51
65 63 0.46
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (63 bp):
TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCC
Found at i:2572533 original size:19 final size:19
Alignment explanation
Indices: 2572509--2572559 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
2572499 GAAAATATTC
2572509 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
2572528 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
2572547 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
2572560 TTCAATTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 19 0.66
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:2572601 original size:65 final size:64
Alignment explanation
Indices: 2572403--2572609 Score: 228
Period size: 65 Copynumber: 3.2 Consensus size: 64
2572393 GCACCAAGTG
* *
2572403 TGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCCTGATGCATCGATGCATGG-CTTG
1 TGCATCGATGCATGAAATGCATTCGATGTTTGAAAAAT-TCATGATGCATCGATGCATGGAC-TG
2572467 -
64 A
*
2572467 TGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCA-GAGTGCATCGATGCATGGA--
1 TGCATCGATGCATGAAATGCATTCGATG-TTTGAAAA-ATTCATGA-TGCATCGATGCATGGACT
2572529 GA
63 GA
* * * *
2572531 GTGCATCGGTGCATGGAATGCATTCGATG-TTCAATTAATTCATCGATGCATCGATGCATGGACT
1 -TGCATCGATGCATGAAATGCATTCGATGTTTGAA-AAATTCAT-GATGCATCGATGCATGGACT
2572595 GA
63 GA
*
2572597 TGCATCGGTGCAT
1 TGCATCGATGCAT
2572610 ACCTTTGAAT
Statistics
Matches: 124, Mismatches: 8, Indels: 21
0.81 0.05 0.14
Matches are distributed among these distances:
63 10 0.08
64 46 0.37
65 64 0.52
66 4 0.03
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (64 bp):
TGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATTCATGATGCATCGATGCATGGACTGA
Found at i:2573242 original size:8 final size:8
Alignment explanation
Indices: 2573219--2573256 Score: 58
Period size: 8 Copynumber: 4.8 Consensus size: 8
2573209 AAATTAAGTT
*
2573219 CAAACATT
1 CAAACATC
*
2573227 CAAGCATC
1 CAAACATC
2573235 CAAACATC
1 CAAACATC
2573243 CAAACATC
1 CAAACATC
2573251 CAAACA
1 CAAACA
2573257 AACATAAACA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.50, C:0.34, G:0.03, T:0.13
Consensus pattern (8 bp):
CAAACATC
Found at i:2580996 original size:64 final size:63
Alignment explanation
Indices: 2580928--2581156 Score: 212
Period size: 64 Copynumber: 3.6 Consensus size: 63
2580918 TTGGAACACT
* ***
2580928 TGATGCATCGGTGCACCAAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCC
1 TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTTTG-AAAATAGCC
** * **
2580992 TGATGCATCGATGCATGGCTTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTC
1 TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATAGCC
* * * * *
2581056 AGAGTGCATCGATGCATGGAGAGTGCATC-AGTGCATGGAATGCATTCGATG-TTCAATTAAT-T
1 TGA-TGCATCGATGCATGGAGTGTGCATCGA-TGCATGAAATGCATTCGATGTTTGAA--AATAG
*
2581118 CA
62 CC
* *
2581120 TCGATGCATCGATGCATGGACTGATGCATCGGTGCAT
1 T-GATGCATCGATGCATGGAGTG-TGCATCGATGCAT
2581157 ACCTTTGAAT
Statistics
Matches: 135, Mismatches: 22, Indels: 15
0.78 0.13 0.09
Matches are distributed among these distances:
63 4 0.03
64 71 0.53
65 60 0.44
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (63 bp):
TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCC
Found at i:2581080 original size:19 final size:19
Alignment explanation
Indices: 2581056--2581106 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
2581046 GAAAATATTC
2581056 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
2581075 AGAGTGCATC-AGTGCATGG
1 AGAGTGCATCGA-TGCATGG
2581094 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
2581107 TTCAATTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 19 0.66
ACGTcount: A:0.27, C:0.16, G:0.33, T:0.24
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:2581082 original size:65 final size:65
Alignment explanation
Indices: 2580949--2581108 Score: 209
Period size: 65 Copynumber: 2.5 Consensus size: 65
2580939 TGCACCAAGT
* ***
2580949 GTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAAATAGCCTGATGCATCGATGCATGGCTT
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGATGCATCGATGCATGGAGA
* **
2581013 GTGCATCGATGCATCAAATGCATTCGATGTTTTG-AAAATATTCAGAGTGCATCGATGCATGGAG
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGA-TGCATCGATGCATGGAG
2581077 A
65 A
*
2581078 GTGCATC-AGTGCATGGAATGCATTCGATGTT
1 GTGCATCGA-TGCATGAAATGCATTCGATGTT
2581109 CAATTAATTC
Statistics
Matches: 84, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
64 38 0.45
65 46 0.55
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (65 bp):
GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGATGCATCGATGCATGGAGA
Found at i:2581148 original size:65 final size:63
Alignment explanation
Indices: 2580950--2581156 Score: 183
Period size: 65 Copynumber: 3.2 Consensus size: 63
2580940 GCACCAAGTG
* * ** *
2580950 TGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCCTGATGCATCGATGCATGG-CTTG
1 TGCATCG-TGCATCAAATGCATTCGATGTTT-CAAAATATTCAGATGCATCGATGCATGGAC-TG
2581014 -
63 A
*
2581014 TGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATGGA--G
1 TGCATCG-TGCATCAAATGCATTCGATG-TTTCAAAATATTCAGA-TGCATCGATGCATGGACTG
2581077 A
63 A
** *
2581078 GTGCATCAGTGCATGGAATGCATTCGATG-TTC-AATTAATTCATCGATGCATCGATGCATGGAC
1 -TGCATC-GTGCATCAAATGCATTCGATGTTTCAAAAT-ATTCA--GATGCATCGATGCATGGAC
2581141 TGA
61 TGA
2581144 TGCATCGGTGCAT
1 TGCATC-GTGCAT
2581157 ACCTTTGAAT
Statistics
Matches: 122, Mismatches: 10, Indels: 21
0.80 0.07 0.14
Matches are distributed among these distances:
62 3 0.02
63 8 0.07
64 52 0.43
65 56 0.46
66 3 0.02
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (63 bp):
TGCATCGTGCATCAAATGCATTCGATGTTTCAAAATATTCAGATGCATCGATGCATGGACTGA
Found at i:2581951 original size:22 final size:22
Alignment explanation
Indices: 2581926--2581977 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 22
2581916 TAGGTTAATT
2581926 TTAAAATATAAACATATAAAT-A
1 TTAAAATATAAACATA-AAATAA
* *
2581948 TTAAAATTTAAACCTAAAATAA
1 TTAAAATATAAACATAAAATAA
2581970 TTCAAAAT
1 TT-AAAAT
2581978 GTCCTTAAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 4 0.15
22 17 0.65
23 5 0.19
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.33
Consensus pattern (22 bp):
TTAAAATATAAACATAAAATAA
Found at i:2586188 original size:24 final size:24
Alignment explanation
Indices: 2586150--2586245 Score: 95
Period size: 24 Copynumber: 4.0 Consensus size: 24
2586140 ATTTGTGTAC
* * *
2586150 ATTCTTCGTGACACTTTATGTGAA
1 ATTCTACGTGGCACTTTATGTGCA
* *
2586174 ATTCTACGTTGCACTTTATGTGCT
1 ATTCTACGTGGCACTTTATGTGCA
* *
2586198 ATTCTATGTGGCACTATATGTGCA
1 ATTCTACGTGGCACTTTATGTGCA
**
2586222 ATTCTATATGGCACTATT-TGTGCA
1 ATTCTACGTGGCACT-TTATGTGCA
2586246 TTAAGGAAAT
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
24 59 0.98
25 1 0.02
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.42
Consensus pattern (24 bp):
ATTCTACGTGGCACTTTATGTGCA
Found at i:2592926 original size:24 final size:24
Alignment explanation
Indices: 2592875--2592939 Score: 69
Period size: 24 Copynumber: 2.7 Consensus size: 24
2592865 TTCTAAGCGG
* * *
2592875 CACTTTATTTTCAATTCTACTTGG
1 CACTTTATTTGCAATTCCACTTGA
2592899 CACTTTATTTGCAATTCCA-TGTGA
1 CACTTTATTTGCAATTCCACT-TGA
* *
2592923 CACTATATGTGCAATTC
1 CACTTTATTTGCAATTC
2592940 TATACTTCAC
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
23 1 0.03
24 34 0.97
ACGTcount: A:0.25, C:0.22, G:0.11, T:0.43
Consensus pattern (24 bp):
CACTTTATTTGCAATTCCACTTGA
Found at i:2593948 original size:2 final size:2
Alignment explanation
Indices: 2593936--2593992 Score: 77
Period size: 2 Copynumber: 30.0 Consensus size: 2
2593926 TTATCTTATT
2593936 TA TA T- TA TA TA TA TA CT- TA -A T- 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
2593975 TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA
2593993 AAATTAAGCA
Statistics
Matches: 50, Mismatches: 0, Indels: 10
0.83 0.00 0.17
Matches are distributed among these distances:
1 4 0.08
2 45 0.90
3 1 0.02
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2596457 original size:16 final size:16
Alignment explanation
Indices: 2596436--2596472 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
2596426 ATTCTTGGTT
2596436 GATGCGATATGTATGA
1 GATGCGATATGTATGA
2596452 GATGCGATATGTATGA
1 GATGCGATATGTATGA
2596468 GATGC
1 GATGC
2596473 ATGTTTTGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.30, C:0.08, G:0.32, T:0.30
Consensus pattern (16 bp):
GATGCGATATGTATGA
Found at i:2599127 original size:23 final size:23
Alignment explanation
Indices: 2599101--2599160 Score: 102
Period size: 23 Copynumber: 2.5 Consensus size: 23
2599091 TATTATCTTT
2599101 TTAGTTTGACAAGATAGTAGGAA
1 TTAGTTTGACAAGATAGTAGGAA
2599124 TTAGTTTGACAAGATAGTAGGAA
1 TTAGTTTGACAAGATAGTAGGAA
2599147 TTAGCTTGTGACAA
1 TTAG-TT-TGACAA
2599161 CTAGTTTTGG
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
23 27 0.77
24 2 0.06
25 6 0.17
ACGTcount: A:0.37, C:0.07, G:0.25, T:0.32
Consensus pattern (23 bp):
TTAGTTTGACAAGATAGTAGGAA
Found at i:2610520 original size:17 final size:17
Alignment explanation
Indices: 2610500--2610542 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
2610490 TTTAGGGAAG
*
2610500 TAGTTCATTAATTAAAC
1 TAGTTCATTAATCAAAC
*
2610517 TAGTTCATTCATCAAAC
1 TAGTTCATTAATCAAAC
2610534 TAGTTCATT
1 TAGTTCATT
2610543 TATTTAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.35, C:0.16, G:0.07, T:0.42
Consensus pattern (17 bp):
TAGTTCATTAATCAAAC
Found at i:2616728 original size:28 final size:28
Alignment explanation
Indices: 2616666--2616736 Score: 83
Period size: 28 Copynumber: 2.5 Consensus size: 28
2616656 TGTAATTTAG
*
2616666 TTCAAACCCTATAAATTACTTCTTAAAC
1 TTCAAACCCTATAAATTACTTCATAAAC
*
2616694 -TCTAAACCCTATAAATTA-TATCATAATC
1 TTC-AAACCCTATAAATTACT-TCATAAAC
*
2616722 TTCAAACTCTATAAA
1 TTCAAACCCTATAAA
2616737 ATTTTGTACA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
27 3 0.08
28 32 0.86
29 2 0.05
ACGTcount: A:0.42, C:0.23, G:0.00, T:0.35
Consensus pattern (28 bp):
TTCAAACCCTATAAATTACTTCATAAAC
Found at i:2629020 original size:46 final size:46
Alignment explanation
Indices: 2628959--2629175 Score: 316
Period size: 46 Copynumber: 4.8 Consensus size: 46
2628949 GATAAAATCT
* *
2628959 CTTACCATTT-ATCCCATAAGCTCGTAAGCTTATTTTACCAAAATA
1 CTTACCATTTAATACCATAAGCTCGTAAGCTTATTTTACCAATATA
* *
2629004 CTTACCATTTAATCCCATATGCTCGT-AGCTTATTTTACCAATATA
1 CTTACCATTTAATACCATAAGCTCGTAAGCTTATTTTACCAATATA
2629049 CTTACCATTTAATACCATAAGCTCGTAAGCTTATTTTACCAATATA
1 CTTACCATTTAATACCATAAGCTCGTAAGCTTATTTTACCAATATA
*
2629095 CTTACCATTTAATACCATAAGCTCGTAAGCTTGTTTTACCAATATA
1 CTTACCATTTAATACCATAAGCTCGTAAGCTTATTTTACCAATATA
** * * *
2629141 CTTGTCA-TT-ATTCCGTAAGCTCATAAGCTTATTTT
1 CTTACCATTTAATACCATAAGCTCGTAAGCTTATTTT
2629176 CATGATTACC
Statistics
Matches: 159, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
44 22 0.14
45 54 0.34
46 83 0.52
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.39
Consensus pattern (46 bp):
CTTACCATTTAATACCATAAGCTCGTAAGCTTATTTTACCAATATA
Found at i:2629047 original size:24 final size:24
Alignment explanation
Indices: 2629020--2629093 Score: 59
Period size: 24 Copynumber: 3.2 Consensus size: 24
2629010 ATTTAATCCC
2629020 ATATGCTCGTAGCTTATTTTACCA
1 ATATGCTCGTAGCTTATTTTACCA
* *
2629044 ATATACT--TA-C-CATTTAATACC-
1 ATATGCTCGTAGCTTATTT--TACCA
*
2629065 ATAAGCTCGTAAGCTTATTTTACCA
1 ATATGCTCGT-AGCTTATTTTACCA
2629090 ATAT
1 ATAT
2629094 ACTTACCATT
Statistics
Matches: 36, Mismatches: 6, Indels: 15
0.63 0.11 0.26
Matches are distributed among these distances:
20 4 0.11
21 6 0.17
22 6 0.17
23 1 0.03
24 11 0.31
25 4 0.11
26 4 0.11
ACGTcount: A:0.32, C:0.20, G:0.08, T:0.39
Consensus pattern (24 bp):
ATATGCTCGTAGCTTATTTTACCA
Found at i:2629064 original size:22 final size:22
Alignment explanation
Indices: 2629039--2629111 Score: 55
Period size: 22 Copynumber: 3.2 Consensus size: 22
2629029 TAGCTTATTT
2629039 TACCAATATACTTACCATTTAA
1 TACCAATATACTTACCATTTAA
*
2629061 TACC-ATA-AGCTCGTAAGCTTATTT--
1 TACCAATATA-CT--T-A-C-CATTTAA
2629085 TACCAATATACTTACCATTTAA
1 TACCAATATACTTACCATTTAA
2629107 TACCA
1 TACCA
2629112 TAAGCTCGTA
Statistics
Matches: 39, Mismatches: 2, Indels: 20
0.64 0.03 0.33
Matches are distributed among these distances:
20 5 0.13
21 6 0.15
22 10 0.26
23 2 0.05
24 5 0.13
25 6 0.15
26 5 0.13
ACGTcount: A:0.37, C:0.23, G:0.04, T:0.36
Consensus pattern (22 bp):
TACCAATATACTTACCATTTAA
Found at i:2629074 original size:91 final size:91
Alignment explanation
Indices: 2628959--2629175 Score: 321
Period size: 91 Copynumber: 2.4 Consensus size: 91
2628949 GATAAAATCT
* * *
2628959 CTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTACCAAAATACTTACCATTTAATCCCATAT
1 CTTACCATTTATACCATAAGCTCGTAAGCTTATTTTACCAAAATACTTACCATTTAATACCATAA
2629024 GCTCGT-AGCTTATTTTACCAATATA
66 GCTCGTAAGCTTATTTTACCAATATA
*
2629049 CTTACCATTTAATACCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTTAATACCATA
1 CTTACCATTT-ATACCATAAGCTCGTAAGCTTATTTTACCAAAATACTTACCATTTAATACCATA
*
2629114 AGCTCGTAAGCTTGTTTTACCAATATA
65 AGCTCGTAAGCTTATTTTACCAATATA
** * * *
2629141 CTTGTCA-TTATTCCGTAAGCTCATAAGCTTATTTT
1 CTTACCATTTATACCATAAGCTCGTAAGCTTATTTT
2629176 CATGATTACC
Statistics
Matches: 115, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
90 33 0.29
91 59 0.51
92 23 0.20
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.39
Consensus pattern (91 bp):
CTTACCATTTATACCATAAGCTCGTAAGCTTATTTTACCAAAATACTTACCATTTAATACCATAA
GCTCGTAAGCTTATTTTACCAATATA
Found at i:2631847 original size:9 final size:9
Alignment explanation
Indices: 2631833--2631864 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
2631823 CATCGAAACT
2631833 GGAAGAAGA
1 GGAAGAAGA
2631842 GGAAGAAGA
1 GGAAGAAGA
2631851 GGAAGAAGA
1 GGAAGAAGA
*
2631860 TGAAG
1 GGAAG
2631865 GTGGACGACC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.53, C:0.00, G:0.44, T:0.03
Consensus pattern (9 bp):
GGAAGAAGA
Found at i:2632098 original size:21 final size:21
Alignment explanation
Indices: 2632074--2632113 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
2632064 AGTACAAGTA
2632074 GTATCAGTACTCCTTTTATGG
1 GTATCAGTACTCCTTTTATGG
** *
2632095 GTATTGGTACTTCTTTTAT
1 GTATCAGTACTCCTTTTAT
2632114 TATTTTTAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.17, C:0.15, G:0.17, T:0.50
Consensus pattern (21 bp):
GTATCAGTACTCCTTTTATGG
Found at i:2633214 original size:31 final size:31
Alignment explanation
Indices: 2633171--2633259 Score: 99
Period size: 31 Copynumber: 2.9 Consensus size: 31
2633161 AGGACCTATC
* *
2633171 CATATGTTCCGAAGAACATATGTAACCTGTA
1 CATATGTCCCGAAGAACATAGGTAACCTGTA
* ** *
2633202 CATATGTCCCGAAGGACATAGGTAAATTGTC
1 CATATGTCCCGAAGAACATAGGTAACCTGTA
*
2633233 CATATGTCTCGAA-AGACATAGGTAACC
1 CATATGTCCCGAAGA-ACATAGGTAACC
2633260 CTCTACTCTT
Statistics
Matches: 47, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (31 bp):
CATATGTCCCGAAGAACATAGGTAACCTGTA
Found at i:2639669 original size:31 final size:31
Alignment explanation
Indices: 2639629--2639710 Score: 92
Period size: 31 Copynumber: 2.6 Consensus size: 31
2639619 GTCCCGGAGG
* * *
2639629 ACCTATCCATATGTTCCGACGAACATAAGTA
1 ACCTGTCCATATGTCCCGAAGAACATAAGTA
* *
2639660 ACCTGTCCATATGTCCCGAAGGACATAGGTA
1 ACCTGTCCATATGTCCCGAAGAACATAAGTA
* * *
2639691 AACTGTCTATATGTCTCGAA
1 ACCTGTCCATATGTCCCGAA
2639711 AGATATAGGT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (31 bp):
ACCTGTCCATATGTCCCGAAGAACATAAGTA
Found at i:2639719 original size:31 final size:31
Alignment explanation
Indices: 2639634--2639722 Score: 90
Period size: 31 Copynumber: 2.9 Consensus size: 31
2639624 GGAGGACCTA
* * * *
2639634 TCCATATGTTCCG-ACGAACATAAGTAACCTG
1 TCCATATGTCCCGAAAG-ACATAGGTAAACTG
*
2639665 TCCATATGTCCCGAAGGACATAGGTAAACTG
1 TCCATATGTCCCGAAAGACATAGGTAAACTG
* * *
2639696 TCTATATGTCTCGAAAGATATAGGTAA
1 TCCATATGTCCCGAAAGACATAGGTAA
2639723 CCCTTTACTC
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
31 47 0.96
32 2 0.04
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (31 bp):
TCCATATGTCCCGAAAGACATAGGTAAACTG
Found at i:2646061 original size:50 final size:50
Alignment explanation
Indices: 2646006--2646129 Score: 205
Period size: 50 Copynumber: 2.5 Consensus size: 50
2645996 ATTAATTTTA
*
2646006 CACATTGATTTTGCTCTAGATTTTA-ATTTACAGAGACAAATACTAATTAG
1 CACATTGATTTTGCTCTAGATTTTAGA-TTACAGAGACAAATAATAATTAG
*
2646056 TACATTGATTTTGCTCTAGATTTTAGATTACAGAGACAAATAATAATTAG
1 CACATTGATTTTGCTCTAGATTTTAGATTACAGAGACAAATAATAATTAG
*
2646106 CACATTGATTTTGTTCTAGATTTT
1 CACATTGATTTTGCTCTAGATTTT
2646130 GGTTTAGAAG
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
50 68 0.99
51 1 0.01
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.41
Consensus pattern (50 bp):
CACATTGATTTTGCTCTAGATTTTAGATTACAGAGACAAATAATAATTAG
Found at i:2649823 original size:29 final size:29
Alignment explanation
Indices: 2649781--2649854 Score: 130
Period size: 29 Copynumber: 2.6 Consensus size: 29
2649771 ACTTTATGTG
*
2649781 ATATTATATATTATGTTCATAACATATTT
1 ATATTACATATTATGTTCATAACATATTT
*
2649810 ATATTACATATTATGTTCATTACATATTT
1 ATATTACATATTATGTTCATAACATATTT
2649839 ATATTACATATTATGT
1 ATATTACATATTATGT
2649855 GATTTATATC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.36, C:0.08, G:0.04, T:0.51
Consensus pattern (29 bp):
ATATTACATATTATGTTCATAACATATTT
Found at i:2649833 original size:16 final size:15
Alignment explanation
Indices: 2649782--2649854 Score: 64
Period size: 13 Copynumber: 5.0 Consensus size: 15
2649772 CTTTATGTGA
*
2649782 TATTATATATTATGT
1 TATTACATATTATGT
* *
2649797 TCATAACATATT-T-A
1 T-ATTACATATTATGT
2649811 TATTACATATTATGT
1 TATTACATATTATGT
*
2649826 TCATTACATATT-T-A
1 T-ATTACATATTATGT
2649840 TATTACATATTATGT
1 TATTACATATTATGT
2649855 GATTTATATC
Statistics
Matches: 45, Mismatches: 7, Indels: 12
0.70 0.11 0.19
Matches are distributed among these distances:
13 19 0.42
14 4 0.09
15 4 0.09
16 18 0.40
ACGTcount: A:0.36, C:0.08, G:0.04, T:0.52
Consensus pattern (15 bp):
TATTACATATTATGT
Found at i:2651418 original size:17 final size:17
Alignment explanation
Indices: 2651396--2651471 Score: 57
Period size: 17 Copynumber: 4.3 Consensus size: 17
2651386 CTAGTTAACC
2651396 TTTTTATTTCA-TTTCTT
1 TTTTTATTT-AGTTTCTT
2651413 TTTTTAATTTAGTTT-TT
1 TTTTT-ATTTAGTTTCTT
*
2651430 TTCTATTATTTATTTTCTT
1 TT-T-TTATTTAGTTTCTT
* **
2651449 TTCTTATTTTCTTTCTT
1 TTTTTATTTAGTTTCTT
2651466 TATTTT
1 T-TTTT
2651472 TTGTTTAATT
Statistics
Matches: 48, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
17 23 0.48
18 19 0.40
19 6 0.12
ACGTcount: A:0.13, C:0.09, G:0.01, T:0.76
Consensus pattern (17 bp):
TTTTTATTTAGTTTCTT
Found at i:2651457 original size:13 final size:13
Alignment explanation
Indices: 2651428--2651471 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
2651418 AATTTAGTTT
*
2651428 TTTTCTATTATTTA
1 TTTTCT-TTCTTTA
2651442 TTTTCTTT-TCTTA
1 TTTTCTTTCT-TTA
2651455 TTTTCTTTCTTTA
1 TTTTCTTTCTTTA
2651468 TTTT
1 TTTT
2651472 TTGTTTAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
12 1 0.04
13 20 0.71
14 7 0.25
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTCTTTCTTTA
Found at i:2654891 original size:20 final size:19
Alignment explanation
Indices: 2654863--2654901 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
2654853 CATACTTTGC
2654863 ATTTTTATTTTCCATGTTT
1 ATTTTTATTTTCCATGTTT
2654882 ATTTTCTATTTTCCATGTTT
1 ATTTT-TATTTTCCATGTTT
2654902 TTACATTCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.15, C:0.13, G:0.05, T:0.67
Consensus pattern (19 bp):
ATTTTTATTTTCCATGTTT
Found at i:2658391 original size:59 final size:59
Alignment explanation
Indices: 2658322--2658730 Score: 595
Period size: 59 Copynumber: 6.9 Consensus size: 59
2658312 GCCAAATGGA
* *
2658322 CACTTTGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTTCATATTGGG
1 CACTTTGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTTCGTATTAGG
* *
2658381 CACTTTGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCATATTAGG
1 CACTTTGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTTCGTATTAGG
* * * * * * * * *
2658440 TACCTTATATGCTAAAATGTGAAGAATTTCATACTAAGTTTATGAATTTTCGCATTGGG
1 CACTTTGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTTCGTATTAGG
2658499 CACTTTGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTTCGTATTAGG
1 CACTTTGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTTCGTATTAGG
* *
2658558 CACCTTGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTAGG
1 CACTTTGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTTCGTATTAGG
* * * *
2658617 CACTTTGTGCGCTAAATTGTTAAGAAATTCATACTAAGAGTGTGAATTTTCGTATTAGG
1 CACTTTGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTTCGTATTAGG
* * * *
2658676 TACTTTGTATGCTAAAATGTT-AGAAGATTCATACTAAGTGTGTGAATTTCCGTAT
1 CACTTTGTGTGCTAAAATGTTAAGAA-ATTCATACTAAGTGTATGAATTTTCGTAT
2658731 GGGAAATATA
Statistics
Matches: 313, Mismatches: 36, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
58 4 0.01
59 309 0.99
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.38
Consensus pattern (59 bp):
CACTTTGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTTCGTATTAGG
Found at i:2662320 original size:18 final size:18
Alignment explanation
Indices: 2662297--2662333 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
2662287 GTTGTGGTTT
2662297 ATGCCTCAAGACAACTGA
1 ATGCCTCAAGACAACTGA
2662315 ATGCCTCAAGACAACTGA
1 ATGCCTCAAGACAACTGA
2662333 A
1 A
2662334 GAATCATGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.41, C:0.27, G:0.16, T:0.16
Consensus pattern (18 bp):
ATGCCTCAAGACAACTGA
Found at i:2665101 original size:95 final size:94
Alignment explanation
Indices: 2664953--2665156 Score: 250
Period size: 95 Copynumber: 2.2 Consensus size: 94
2664943 ATACCGACGA
* * *
2664953 GGTAGTATCGATACCATGGTAGGGTATCGATAGCAAGCAACATCGAATCTAAAATTGGTATCGAT
1 GGTAGTATCGATACCATAGTAGGGTATCGATACCAAGCAACATCGAACCTAAAATTGGTATCGAT
2665018 ACCGGAAGGGGGTATC-A-GTACCATAGTAT
66 ACCGGAA-GGGG-ATCTAGGTACCATAGTAT
* * * * * *
2665047 GGTAGTATTGATACGATAGTAATGGTATCTATACCAGGCAACATCGAACCTAAAATTGGTATTGA
1 GGTAGTATCGATACCATAGT-AGGGTATCGATACCAAGCAACATCGAACCTAAAATTGGTATCGA
*
2665112 TATCGGAAGGGGATCTAGGTACCATAGTAT
65 TACCGGAAGGGGATCTAGGTACCATAGTAT
** *
2665142 AATAATATCGATACC
1 GGTAGTATCGATACC
2665157 GGAGTAGTAG
Statistics
Matches: 92, Mismatches: 15, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
93 3 0.03
94 22 0.24
95 67 0.73
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.26
Consensus pattern (94 bp):
GGTAGTATCGATACCATAGTAGGGTATCGATACCAAGCAACATCGAACCTAAAATTGGTATCGAT
ACCGGAAGGGGATCTAGGTACCATAGTAT
Found at i:2665178 original size:28 final size:28
Alignment explanation
Indices: 2665136--2665206 Score: 92
Period size: 28 Copynumber: 2.5 Consensus size: 28
2665126 CTAGGTACCA
2665136 TAGTATAATAATATCGATACC-GGAGTAG
1 TAGTATAATAATATCGATACCAGG-GTAG
2665164 TAGTATAA-AAGTATCGATACCAGGGTAG
1 TAGTATAATAA-TATCGATACCAGGGTAG
*
2665192 TAGTATCGATAATAT
1 TAGTAT-AATAATAT
2665207 GGAGCTAGAA
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
27 2 0.05
28 28 0.74
29 6 0.16
30 2 0.05
ACGTcount: A:0.39, C:0.10, G:0.21, T:0.30
Consensus pattern (28 bp):
TAGTATAATAATATCGATACCAGGGTAG
Found at i:2665593 original size:59 final size:59
Alignment explanation
Indices: 2665524--2665976 Score: 642
Period size: 59 Copynumber: 7.7 Consensus size: 59
2665514 GATTACCAAA
* *
2665524 TGGGCACTTTGTGTTG-TAAAATGTTAAGAAATTTATACTAAGTGTATGAATTTCTGTAT
1 TGGGCACTTTGTG-TGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTAT
*
2665583 TGGGCACTTTGTGTGCTAAAATGTTAAGCAATTCATACTAAGTGTATGAATTTCCGTAT
1 TGGGCACTTTGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTAT
* * *
2665642 TAGGCACCTTGTGTGCTAAAATGTTAAGAAATTCATATTAAGTGTATGAATTTCCGTAT
1 TGGGCACTTTGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTAT
2665701 TGGGCACTTTGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTAT
1 TGGGCACTTTGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTAT
* * *
2665760 TAGGCACCTTGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTTCGTAT
1 TGGGCACTTTGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTAT
* ** * **
2665819 TGGGAACTTTGTGTTTTAAAATGTTAAGAAATTCATATTAAAAGTATGAATTTCCGTAT
1 TGGGCACTTTGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTAT
* * * *
2665878 TGGACACTTTATGTGCTAAAATGTTAAGAGATTCATACTAAGTGTGTGAATTTCCGTA-
1 TGGGCACTTTGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTAT
* * * * ***
2665936 TGGGAAATATATGTG-TAAAAACATAAGAAATTCATACTAAG
1 TGGGCACTTTGTGTGCTAAAATGTTAAGAAATTCATACTAAG
2665977 GAAGTGGATT
Statistics
Matches: 353, Mismatches: 40, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
57 22 0.06
58 13 0.04
59 318 0.90
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.37
Consensus pattern (59 bp):
TGGGCACTTTGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTAT
Found at i:2667462 original size:25 final size:25
Alignment explanation
Indices: 2667433--2667489 Score: 105
Period size: 25 Copynumber: 2.3 Consensus size: 25
2667423 AAGATAGGAA
*
2667433 AAGGATTTGGGAAGCTACTGGAAGG
1 AAGGATTTGGGAAGCTACTGCAAGG
2667458 AAGGATTTGGGAAGCTACTGCAAGG
1 AAGGATTTGGGAAGCTACTGCAAGG
2667483 AAGGATT
1 AAGGATT
2667490 AGTCACGTCC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.33, C:0.09, G:0.37, T:0.21
Consensus pattern (25 bp):
AAGGATTTGGGAAGCTACTGCAAGG
Found at i:2671667 original size:6 final size:6
Alignment explanation
Indices: 2671656--2671698 Score: 50
Period size: 6 Copynumber: 6.8 Consensus size: 6
2671646 AAATTGAATT
* *
2671656 GAAAAA GAAAAA TTGAAAAA GAAAAC GAAAAA GAAAAT GAAAA
1 GAAAAA GAAAAA --GAAAAA GAAAAA GAAAAA GAAAAA GAAAA
2671699 CAAGGTGGGT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
6 26 0.81
8 6 0.19
ACGTcount: A:0.74, C:0.02, G:0.16, T:0.07
Consensus pattern (6 bp):
GAAAAA
Found at i:2671671 original size:14 final size:14
Alignment explanation
Indices: 2671652--2671692 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
2671642 CCCTAAATTG
2671652 AATTGAAAAAGAAA
1 AATTGAAAAAGAAA
2671666 AATTGAAAAAG-AA
1 AATTGAAAAAGAAA
*
2671679 AA-CGAAAAAGAAA
1 AATTGAAAAAGAAA
2671692 A
1 A
2671693 TGAAAACAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
12 7 0.28
13 7 0.28
14 11 0.44
ACGTcount: A:0.73, C:0.02, G:0.15, T:0.10
Consensus pattern (14 bp):
AATTGAAAAAGAAA
Found at i:2671687 original size:12 final size:12
Alignment explanation
Indices: 2671655--2671698 Score: 61
Period size: 12 Copynumber: 3.5 Consensus size: 12
2671645 TAAATTGAAT
2671655 TGAAAAAGAAAAA
1 TGAAAAAG-AAAA
2671668 TTGAAAAAGAAAA
1 -TGAAAAAGAAAA
*
2671681 CGAAAAAGAAAA
1 TGAAAAAGAAAA
2671693 TGAAAA
1 TGAAAA
2671699 CAAGGTGGGT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
12 16 0.57
13 4 0.14
14 8 0.29
ACGTcount: A:0.73, C:0.02, G:0.16, T:0.09
Consensus pattern (12 bp):
TGAAAAAGAAAA
Found at i:2673436 original size:22 final size:22
Alignment explanation
Indices: 2673404--2673460 Score: 80
Period size: 22 Copynumber: 2.5 Consensus size: 22
2673394 ACTTTATGTG
2673404 ATATTATATATTATAG-TCATAAC
1 ATATT-TATATTAT-GTTCATAAC
*
2673427 ATATTTATATTATGTTTATAAC
1 ATATTTATATTATGTTCATAAC
2673449 ATATTTATATTA
1 ATATTTATATTA
2673461 CATATTATGT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
21 1 0.03
22 26 0.81
23 5 0.16
ACGTcount: A:0.40, C:0.05, G:0.04, T:0.51
Consensus pattern (22 bp):
ATATTTATATTATGTTCATAAC
Found at i:2673437 original size:29 final size:28
Alignment explanation
Indices: 2673404--2673499 Score: 105
Period size: 29 Copynumber: 3.6 Consensus size: 28
2673394 ACTTTATGTG
*
2673404 ATATTATATATTATAGTCATAACATATTT
1 ATATTACATATTAT-GTCATAACATATTT
*
2673433 ATATT--AT-GT-T-T-ATAACATATTT
1 ATATTACATATTATGTCATAACATATTT
*
2673455 ATATTACATATTATGTTCATTACATATTT
1 ATATTACATATTATG-TCATAACATATTT
2673484 ATATTACATATTATGT
1 ATATTACATATTATGT
2673500 GATTTACATC
Statistics
Matches: 57, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
22 16 0.28
23 1 0.02
24 2 0.04
25 2 0.04
26 2 0.04
27 2 0.04
28 2 0.04
29 30 0.53
ACGTcount: A:0.38, C:0.07, G:0.04, T:0.51
Consensus pattern (28 bp):
ATATTACATATTATGTCATAACATATTT
Found at i:2673465 original size:13 final size:13
Alignment explanation
Indices: 2673425--2673545 Score: 72
Period size: 13 Copynumber: 8.8 Consensus size: 13
2673415 TATAGTCATA
2673425 ACATATTTATATT
1 ACATATTTATATT
*
2673438 --ATGTTTATA--
1 ACATATTTATATT
2673447 ACATATTTATATT
1 ACATATTTATATT
*
2673460 ACATATTATGTTCATT
1 ACATATT-T-AT-ATT
2673476 ACATATTTATATT
1 ACATATTTATATT
*
2673489 ACATATTATGTGATTT
1 ACATATT-TAT-A-TT
2673505 ACATCATATGGTATA-T
1 ACAT-AT-T--TATATT
*
2673521 ACACATTATATATT
1 ACATATT-TATATT
2673535 ACATATTTATA
1 ACATATTTATA
2673546 ATGTATATCT
Statistics
Matches: 84, Mismatches: 10, Indels: 28
0.69 0.08 0.23
Matches are distributed among these distances:
11 16 0.19
13 25 0.30
14 12 0.14
15 5 0.06
16 20 0.24
17 2 0.02
18 2 0.02
19 2 0.02
ACGTcount: A:0.37, C:0.09, G:0.05, T:0.49
Consensus pattern (13 bp):
ACATATTTATATT
Found at i:2673478 original size:16 final size:15
Alignment explanation
Indices: 2673433--2673541 Score: 68
Period size: 16 Copynumber: 7.3 Consensus size: 15
2673423 TAACATATTT
*
2673433 ATATTATGTTTATAAC
1 ATATTATG-TTATTAC
*
2673449 ATATT-T-ATATTAC
1 ATATTATGTTATTAC
2673462 ATATTATGTTCATTAC
1 ATATTATGTT-ATTAC
*
2673478 ATATT-T-ATATTAC
1 ATATTATGTTATTAC
*
2673491 ATATTATGTGATTTAC
1 ATATTATGTTA-TTAC
*
2673507 ATCA-TATGGTATATAC
1 AT-ATTATGTTAT-TAC
* *
2673523 ACATTAT-ATATTAC
1 ATATTATGTTATTAC
2673537 ATATT
1 ATATT
2673542 TATAATGTAT
Statistics
Matches: 73, Mismatches: 11, Indels: 20
0.70 0.11 0.19
Matches are distributed among these distances:
13 20 0.27
14 10 0.14
15 9 0.12
16 33 0.45
17 1 0.01
ACGTcount: A:0.37, C:0.09, G:0.06, T:0.49
Consensus pattern (15 bp):
ATATTATGTTATTAC
Found at i:2673508 original size:29 final size:29
Alignment explanation
Indices: 2673433--2673499 Score: 116
Period size: 29 Copynumber: 2.3 Consensus size: 29
2673423 TAACATATTT
* *
2673433 ATATTATGTTTATAACATATTTATATTAC
1 ATATTATGTTCATTACATATTTATATTAC
2673462 ATATTATGTTCATTACATATTTATATTAC
1 ATATTATGTTCATTACATATTTATATTAC
2673491 ATATTATGT
1 ATATTATGT
2673500 GATTTACATC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.36, C:0.07, G:0.04, T:0.52
Consensus pattern (29 bp):
ATATTATGTTCATTACATATTTATATTAC
Found at i:2674938 original size:28 final size:30
Alignment explanation
Indices: 2674889--2674951 Score: 78
Period size: 28 Copynumber: 2.2 Consensus size: 30
2674879 TCCTTTTAAT
* *
2674889 TTTTTCTTTATTTTATTATTTT-ATTATTTC
1 TTTTTCTCTATTTAATTATTTTAATT-TTTC
2674919 TTTTTCTCT-TTTAATT-TTTTAATTTTTC
1 TTTTTCTCTATTTAATTATTTTAATTTTTC
2674947 TTTTT
1 TTTTT
2674952 TTTTTTGAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 13 0.43
29 9 0.30
30 8 0.27
ACGTcount: A:0.14, C:0.08, G:0.00, T:0.78
Consensus pattern (30 bp):
TTTTTCTCTATTTAATTATTTTAATTTTTC
Found at i:2674956 original size:20 final size:20
Alignment explanation
Indices: 2674919--2674979 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 20
2674909 TTATTATTTC
*
2674919 TTTTTCTCTTTTAATTTTTTAA
1 TTTTTCT-TTTT-TTTTTTTAA
*
2674941 TTTTTCTTTTTTTTTTTGAA
1 TTTTTCTTTTTTTTTTTTAA
2674961 TTGTTT-TTTTCTTTTTTTT
1 TT-TTTCTTTT-TTTTTTTT
2674980 CGTTTTATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
20 13 0.38
21 14 0.41
22 7 0.21
ACGTcount: A:0.10, C:0.07, G:0.03, T:0.80
Consensus pattern (20 bp):
TTTTTCTTTTTTTTTTTTAA
Found at i:2674962 original size:28 final size:25
Alignment explanation
Indices: 2674889--2674979 Score: 80
Period size: 25 Copynumber: 3.6 Consensus size: 25
2674879 TCCTTTTAAT
* *
2674889 TTTTTCTTTATTTTATT-A-TTTTA
1 TTTTTCTTTTTTTTTTTAATTTTTA
*
2674912 TTATTTCTTTTTCTCTTTTAATTTTTTAA
1 TT-TTTCTTTTT-TTTTTTAA-TTTTT-A
*
2674941 TTTTTCTTTTTTTTTTTGAATTGTT-
1 TTTTTCTTTTTTTTTTT-AATTTTTA
2674966 TTTTTCTTTTTTTT
1 TTTTTCTTTTTTTT
2674980 CGTTTTATTT
Statistics
Matches: 56, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
23 2 0.04
24 8 0.14
25 18 0.32
26 1 0.02
27 9 0.16
28 15 0.27
29 3 0.05
ACGTcount: A:0.12, C:0.07, G:0.02, T:0.79
Consensus pattern (25 bp):
TTTTTCTTTTTTTTTTTAATTTTTA
Found at i:2677479 original size:2 final size:2
Alignment explanation
Indices: 2677472--2677497 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2677462 ATTAAATAAA
2677472 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
2677498 CATAAACAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2678948 original size:29 final size:28
Alignment explanation
Indices: 2678908--2678975 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 28
2678898 AATCATTCAT
*
2678908 AACTTTTCTAAAATTGTCA-AATTGGTCCCC
1 AACTTTT-TAAAATTAT-AGAA-TGGTCCCC
2678938 AACTTTTTAAAAATTATAGAATGGTCCCC
1 AACTTTTT-AAAATTATAGAATGGTCCCC
*
2678967 AAATTTTTA
1 AACTTTTTA
2678976 TAAGACTTGT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
28 1 0.03
29 17 0.50
30 16 0.47
ACGTcount: A:0.35, C:0.18, G:0.09, T:0.38
Consensus pattern (28 bp):
AACTTTTTAAAATTATAGAATGGTCCCC
Found at i:2682855 original size:16 final size:16
Alignment explanation
Indices: 2682834--2682869 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
2682824 AAATATTATG
2682834 TCTAATGAATCCTCGA
1 TCTAATGAATCCTCGA
2682850 TCTAATGAATCCTCGA
1 TCTAATGAATCCTCGA
2682866 TCTA
1 TCTA
2682870 GAAGCTCTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.31, C:0.25, G:0.11, T:0.33
Consensus pattern (16 bp):
TCTAATGAATCCTCGA
Found at i:2683941 original size:2 final size:2
Alignment explanation
Indices: 2683936--2683970 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
2683926 CTTTTTTTAT
2683936 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2683971 GTTTGCACAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2684036 original size:38 final size:37
Alignment explanation
Indices: 2683983--2684320 Score: 332
Period size: 38 Copynumber: 8.7 Consensus size: 37
2683973 TTGCACATGA
*
2683983 ATTTTGAAATGTATATATAATATATAGTTTTTGAAAAAC
1 ATTTTGAAATATATATATAATATATAGTTTTT--AAAAC
*
2684022 ATTTTGAAAATATATATATAATATATAATTTTTAAAAC
1 ATTTTG-AAATATATATATAATATATAGTTTTTAAAAC
2684060 ATTTTGAAAATATATATATATATATATTATATAGTTTTTCAAAAC
1 ATTTTG---A-A-ATATATATATA-A-TATATAGTTTTT-AAAAC
2684105 ATTTTGAATATATATATATATATAATATAGTTTTTTAAAAC
1 ATTTTGAA-ATATATATATA-AT-ATATAG-TTTTTAAAAC
2684146 ATTTTGAAAATATATATATAATATATAGTTTTTAAAAC
1 ATTTTG-AAATATATATATAATATATAGTTTTTAAAAC
2684184 ATTTTGGAAA-ATTATATATAATATATAGTTTTTAAAAC
1 ATTTT-GAAATA-TATATATAATATATAGTTTTTAAAAC
* * * *
2684222 A-TTT-AAAAATATATATAATATATGGTTTTGAAAAT
1 ATTTTGAAATATATATATAATATATAGTTTTTAAAAC
*
2684257 ATTTTTG-AA-ATATATGT--TATATAG-TTTTAAAAC
1 A-TTTTGAAATATATATATAATATATAGTTTTTAAAAC
*
2684290 AATTTTTTAGAAAAATATATATATATATATA
1 -A--TTTT-GAAATATATATATA-ATATATA
2684321 TATATATATA
Statistics
Matches: 263, Mismatches: 11, Indels: 48
0.82 0.03 0.15
Matches are distributed among these distances:
33 7 0.03
34 7 0.03
35 32 0.12
36 9 0.03
37 11 0.04
38 63 0.24
39 13 0.05
40 29 0.11
41 50 0.19
42 19 0.07
43 1 0.00
44 11 0.04
45 11 0.04
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.46
Consensus pattern (37 bp):
ATTTTGAAATATATATATAATATATAGTTTTTAAAAC
Found at i:2684178 original size:124 final size:121
Alignment explanation
Indices: 2683947--2684328 Score: 422
Period size: 124 Copynumber: 3.2 Consensus size: 121
2683937 ATATATATAT
* * *
2683947 ATATATATATATATATATTATATAG-TTTGCACATGA-ATTTTGAAATGTATATATAATATATAG
1 ATATATATATATATATATTATATAGTTTTTCA-A-AACATTTTGAAATATATATATAATATATAG
*
2684010 TTTTTGAAAAACATTTTGAAAATATATATATAATATATAATTTTTAAAACATTTTGAAA
64 TTTTT-AAAAACATTTTGAAAATATATATATAATATATAGTTTTTAAAACATTTTGAAA
2684069 ATATATATATATATATATTATATAGTTTTTCAAAACATTTTGAATATATATATATATATAATATA
1 ATATATATATATATATATTATATAGTTTTTCAAAACATTTTGAA-ATATATATATA-AT-ATATA
* *
2684134 GTTTTTTAAAACATTTTGAAAATATATATATAATATATAGTTTTTAAAACATTTTG-GA
63 GTTTTTAAAAACATTTTGAAAATATATATATAATATATAGTTTTTAAAACATTTTGAAA
* *
2684192 A-A-AT-TATATATA-A-TATATAGTTTTT-AAAACA-TTT-AAAAATATATATAATATATGGTT
1 ATATATATATATATATATTATATAGTTTTTCAAAACATTTTGAAATATATATATAATATATAGTT
* * *
2684249 TTGAAAATA-TTTTTG--AA-ATATATGT--TATATAG-TTTTAAAACAATTTTTTAGAAAA
66 TTTAAAA-ACATTTTGAAAATATATATATAATATATAGTTTTTAAAAC-A--TTTT-G-AAA
2684304 ATATATATATATATATATATATATA
1 ATATATATATATATATAT-TATATA
2684329 TATATATATA
Statistics
Matches: 229, Mismatches: 13, Indels: 40
0.81 0.05 0.14
Matches are distributed among these distances:
106 9 0.04
107 8 0.03
109 11 0.05
110 3 0.01
112 19 0.08
113 4 0.02
114 12 0.05
115 10 0.04
116 4 0.02
117 6 0.03
118 18 0.08
119 1 0.00
120 8 0.03
121 3 0.01
122 35 0.15
123 17 0.07
124 50 0.22
125 11 0.05
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.46
Consensus pattern (121 bp):
ATATATATATATATATATTATATAGTTTTTCAAAACATTTTGAAATATATATATAATATATAGTT
TTTAAAAACATTTTGAAAATATATATATAATATATAGTTTTTAAAACATTTTGAAA
Found at i:2684309 original size:2 final size:2
Alignment explanation
Indices: 2684304--2684354 Score: 95
Period size: 2 Copynumber: 26.0 Consensus size: 2
2684294 TTTTAGAAAA
2684304 AT 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 AT
2684346 AT -T AT AT AT
1 AT AT AT AT AT
2684355 TTTATTATTA
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 47 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:2684316 original size:73 final size:74
Alignment explanation
Indices: 2684077--2684320 Score: 259
Period size: 73 Copynumber: 3.2 Consensus size: 74
2684067 AAATATATAT
* *
2684077 ATATATATATTATATAGTTTTTCAAAACATTTT-GAATATATATATATATATAATATAGTTTTTT
1 ATATATATAATATATAG-TTTTGAAAACATTTTGGAA-A-AT-TATATATAT-ATATAG-TTTTT
2684141 AAAACATTTTGAAAA
60 AAAACATTTTGAAAA
*
2684156 TATATATATAATATATAGTTTTTAAAACATTTTGGAAAATTATATATAATATATAGTTTTTAAAA
1 -ATATATATAATATATAGTTTTGAAAACATTTTGGAAAATTATATAT-ATATATAGTTTTTAAAA
2684221 CA-TTT-AAAA
64 CATTTTGAAAA
* * * *
2684230 ATATATATAATATATGGTTTTGAAAATATTTTTG-AAA-TATATGT-TATATAG-TTTTAAAACA
1 ATATATATAATATATAGTTTTGAAAACATTTTGGAAAATTATATATATATATAGTTTTTAAAAC-
2684291 ATTTTTTAGAAAA
65 A--TTTT-GAAAA
2684304 ATATATATATATATATA
1 ATATATATA-ATATATA
2684321 TATATATATA
Statistics
Matches: 147, Mismatches: 8, Indels: 23
0.83 0.04 0.13
Matches are distributed among these distances:
68 9 0.06
69 8 0.05
71 6 0.04
72 6 0.04
73 30 0.20
74 17 0.12
75 9 0.06
76 11 0.07
77 13 0.09
78 4 0.03
79 15 0.10
80 19 0.13
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.46
Consensus pattern (74 bp):
ATATATATAATATATAGTTTTGAAAACATTTTGGAAAATTATATATATATATAGTTTTTAAAACA
TTTTGAAAA
Found at i:2684363 original size:15 final size:16
Alignment explanation
Indices: 2684304--2684372 Score: 77
Period size: 18 Copynumber: 4.1 Consensus size: 16
2684294 TTTTAGAAAA
2684304 ATATATATATATATATAT
1 ATATATAT-TATATAT-T
2684322 ATATATATATATATATAT
1 ATATATAT-TATATAT-T
2684340 ATATATATTATATATT
1 ATATATATTATATATT
* *
2684356 TTAT-TATTATTTATT
1 ATATATATTATATATT
2684371 AT
1 AT
2684373 TTGTTTTTAG
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.23
16 4 0.08
17 7 0.15
18 26 0.54
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
ATATATATTATATATT
Found at i:2684813 original size:24 final size:22
Alignment explanation
Indices: 2684778--2684821 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
2684768 ACCAAGATCG
*
2684778 AAACCAACATCAACGAAAAATA
1 AAACCAACATCAACAAAAAATA
2684800 AAACACAACCATCAACAAAAAA
1 AAAC-CAA-CATCAACAAAAAA
2684822 ACCATTCGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 3 0.16
24 12 0.63
ACGTcount: A:0.66, C:0.25, G:0.02, T:0.07
Consensus pattern (22 bp):
AAACCAACATCAACAAAAAATA
Found at i:2685406 original size:26 final size:27
Alignment explanation
Indices: 2685380--2685447 Score: 79
Period size: 26 Copynumber: 2.6 Consensus size: 27
2685370 ATTTCTTTTA
2685380 TATTTTATTATATTTTATCAGTATTAT
1 TATTTTATTATATTTTATCAGTATTAT
* *
2685407 TATTTCTATT-TA-TTTATTATTATTAT
1 TATTT-TATTATATTTTATCAGTATTAT
*
2685433 TATTTAATTA-ATTTT
1 TATTTTATTATATTTT
2685448 TACTCAATAT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
25 4 0.11
26 20 0.57
27 7 0.20
28 4 0.11
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.66
Consensus pattern (27 bp):
TATTTTATTATATTTTATCAGTATTAT
Found at i:2685438 original size:20 final size:20
Alignment explanation
Indices: 2685357--2685430 Score: 61
Period size: 20 Copynumber: 3.9 Consensus size: 20
2685347 TTTTCCCACT
2685357 TATTTATTTA-T-TTATTTC
1 TATTTATTTATTATTATTTC
*
2685375 T-TTTATATT-TTATTATATTT
1 TATTTAT-TTATTATTAT-TTC
* *
2685395 TA-TCA-GTATTATTATTTC
1 TATTTATTTATTATTATTTC
2685413 TATTTATTTATTATTATT
1 TATTTATTTATTATTATT
2685431 ATTATTTAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 14
0.68 0.10 0.23
Matches are distributed among these distances:
17 5 0.12
18 9 0.21
19 13 0.31
20 15 0.36
ACGTcount: A:0.26, C:0.04, G:0.01, T:0.69
Consensus pattern (20 bp):
TATTTATTTATTATTATTTC
Found at i:2689450 original size:32 final size:32
Alignment explanation
Indices: 2689385--2689450 Score: 89
Period size: 32 Copynumber: 2.1 Consensus size: 32
2689375 AGAATCAACT
* * *
2689385 TCAGAGGGGTTCAAGAGCTAATTCTAAATGAA
1 TCAGACGGGTTCAAGAGCCAATTCTAAACGAA
2689417 TCAGACGGGTTCAAGAGCCAATTC-AGAACGAA
1 TCAGACGGGTTCAAGAGCCAATTCTA-AACGAA
2689449 TC
1 TC
2689451 CAGTTCATCT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
31 1 0.03
32 29 0.97
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.21
Consensus pattern (32 bp):
TCAGACGGGTTCAAGAGCCAATTCTAAACGAA
Found at i:2689832 original size:85 final size:85
Alignment explanation
Indices: 2689688--2690521 Score: 979
Period size: 85 Copynumber: 9.8 Consensus size: 85
2689678 GAAATATTGG
* * * * * * * * *
2689688 CAGCATAGCTCAAGGCGAGAAAGGCTATATGTCAATAAATACTTTTGAGTTCGATTACACTCGGC
1 CAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAGC
*
2689753 TCAAAGGCGCATCAAATTTA
66 TCAAAGGCACATCAAATTTA
* * * *
2689773 TAGCATAACTCAAGGAGATAAGGGTTATCTGTCAACCAAGACCTTCGAGTTCGATTACACTCAGC
1 CAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAGC
* *
2689838 TCAAAGGCATATTAAATTTA
66 TCAAAGGCACATCAAATTTA
* * *
2689858 CATCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAAGACCTTCGAGTTCGATTACACTCAG
1 CAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAAC-AAAGACCTTCGAGTTCGATTACACTCAG
* *
2689923 CTCAAGGGCATATCAAATTTA
65 CTCAAAGGCACATCAAATTTA
* * * *
2689944 CAACATAACTCAAGGCGAGAATGGTTATCTGTCAACCAAGACCTTCGAGTTCGATTACACTCAAC
1 CAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAGC
2690009 TCAAAGGCACATCAAATTTA
66 TCAAAGGCACATCAAATTTA
* * * *
2690029 CAGTATAACTCAAGGTGAGAAGGGTTATCTGTCAACCAAGACCTTCGAGATCGATTACACTCAGC
1 CAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAGC
* **
2690094 TCAAAGGCACATCAAGTTCG
66 TCAAAGGCACATCAAATTTA
* * * * * * * *
2690114 TAGCATTACTCAAGGCTAGAAGGGTTATCTTTCAACGAAAAACCTTTGAGTTCGATTACATTCAA
1 CAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAAC-AAAGACCTTCGAGTTCGATTACACTCAG
*
2690179 CTCAAAGACACATCAAATTTA
65 CTCAAAGGCACATCAAATTTA
* *
2690200 CAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACCAAGACCTTCGAGTTTGATTACACTCAGC
1 CAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAGC
* *
2690265 TCAAAGGTATATCAAATTTA
66 TCAAAGGCACATCAAATTTA
* * * * * *
2690285 CAACATAGCTCAAGGCGAGAAGGGCTATCTGTCAATAAAAGACCTTCGAGTTTGATTACATTCAG
1 CAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAA-CAAAGACCTTCGAGTTCGATTACACTCAG
* * * *
2690350 CTCAAAGGTATATCTAACTTA
65 CTCAAAGGCACATCAAATTTA
* * * * *
2690371 CAGCATAACTGAAGGCAAGAAGGGTTA-CATGTCAGCAAAGACCTTCGAGTTGGATTACATTCAG
1 CAGCATAACTCAAGGCGAGAAGGGTTATC-TGTCAACAAAGACCTTCGAGTTCGATTACACTCAG
*
2690435 CTCAAAGGCACATGAAATTTA
65 CTCAAAGGCACATCAAATTTA
* * * * * * * * * *
2690456 TAGCATAGCTC-AGGCAAGAAGGGATATATGTCGACAAATACCTTCGAGTTTGATTATATTCAGC
1 CAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAGC
2690520 TC
66 TC
2690522 GATGACATAT
Statistics
Matches: 642, Mismatches: 102, Indels: 11
0.85 0.14 0.01
Matches are distributed among these distances:
84 47 0.07
85 374 0.58
86 221 0.34
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (85 bp):
CAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAGC
TCAAAGGCACATCAAATTTA
Found at i:2689975 original size:171 final size:170
Alignment explanation
Indices: 2689688--2690521 Score: 997
Period size: 171 Copynumber: 4.9 Consensus size: 170
2689678 GAAATATTGG
* * * * * * * * *
2689688 CAGCATAGCTCAAGGCGAGAAAGGCTATATGTCAATAAATACTTTTGAGTTCGATTACACTCGGC
1 CAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAGC
* * * *
2689753 TCAAAGGCGCATCAAATTTATAGCATAACTCAAGGAGATAAGGGTTATCTGTCAACCAAGACCTT
66 TCAAAGGCACATCAAATTTATAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTT
* * *
2689818 CGAGTTCGATTACACTCAGCTCAAAGGCATATTAAATTTA
131 CGAGTTCGATTACATTCAGCTCAAAGGCACATCAAATTTA
* * *
2689858 CATCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAAGACCTTCGAGTTCGATTACACTCAG
1 CAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAAC-AAAGACCTTCGAGTTCGATTACACTCAG
* * * * * *
2689923 CTCAAGGGCATATCAAATTTACAACATAACTCAAGGCGAGAATGGTTATCTGTCAACCAAGACCT
65 CTCAAAGGCACATCAAATTTATAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCT
* *
2689988 TCGAGTTCGATTACACTCAACTCAAAGGCACATCAAATTTA
130 TCGAGTTCGATTACATTCAGCTCAAAGGCACATCAAATTTA
* * * *
2690029 CAGTATAACTCAAGGTGAGAAGGGTTATCTGTCAACCAAGACCTTCGAGATCGATTACACTCAGC
1 CAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAGC
* ** * * * *
2690094 TCAAAGGCACATCAAGTTCGTAGCATTACTCAAGGCTAGAAGGGTTATCTTTCAACGAAAAACCT
66 TCAAAGGCACATCAAATTTATAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAAC-AAAGACCT
* * *
2690159 TTGAGTTCGATTACATTCAACTCAAAGACACATCAAATTTA
130 TCGAGTTCGATTACATTCAGCTCAAAGGCACATCAAATTTA
* *
2690200 CAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACCAAGACCTTCGAGTTTGATTACACTCAGC
1 CAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAGC
* * * * * * *
2690265 TCAAAGGTATATCAAATTTACAACATAGCTCAAGGCGAGAAGGGCTATCTGTCAATAAAAGACCT
66 TCAAAGGCACATCAAATTTATAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAA-CAAAGACCT
* * * * *
2690330 TCGAGTTTGATTACATTCAGCTCAAAGGTATATCTAACTTA
130 TCGAGTTCGATTACATTCAGCTCAAAGGCACATCAAATTTA
* * * * *
2690371 CAGCATAACTGAAGGCAAGAAGGGTTA-CATGTCAGCAAAGACCTTCGAGTTGGATTACATTCAG
1 CAGCATAACTCAAGGCGAGAAGGGTTATC-TGTCAACAAAGACCTTCGAGTTCGATTACACTCAG
* * * * * * *
2690435 CTCAAAGGCACATGAAATTTATAGCATAGCTC-AGGCAAGAAGGGATATATGTCGACAAATACCT
65 CTCAAAGGCACATCAAATTTATAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCT
* *
2690499 TCGAGTTTGATTATATTCAGCTC
130 TCGAGTTCGATTACATTCAGCTC
2690522 GATGACATAT
Statistics
Matches: 574, Mismatches: 86, Indels: 9
0.86 0.13 0.01
Matches are distributed among these distances:
169 29 0.05
170 124 0.22
171 421 0.73
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (170 bp):
CAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAGC
TCAAAGGCACATCAAATTTATAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTT
CGAGTTCGATTACATTCAGCTCAAAGGCACATCAAATTTA
Found at i:2690167 original size:256 final size:254
Alignment explanation
Indices: 2689688--2690521 Score: 985
Period size: 256 Copynumber: 3.3 Consensus size: 254
2689678 GAAATATTGG
* * * * * * * *
2689688 CAGCATAGCTCAAGGCGAGAAAGGCTATATGTCAATAAATACTTTTGAGTTCGATTACACTCGGC
1 CAGCATAACTCAAGGCGAGAAGGGTTATATGTCAACAAAGACCTTCGAGTTCGATTACACTCAGC
* * *
2689753 TCAAAGGCGCATCAAATTTATAGCATAACTCAAGGAGATAAGGGTTATCTGTCAACCAAGACCTT
66 TCAAAGGCACATCAAATTTACAGCATAACTCAAGGAGAGAAGGGTTATCTGTCAACCAAGACCTT
* *
2689818 CGAGTTCGATTACACTCAGCTCAAAGGCATATTAAATT-TA-CATCATAGCTCAAGGCGAGAAGG
131 CGAGTTCGATTACACTCAGCTCAAAGGCATATCAAATTCTAGCAT--TA-CTCAAGGCAAGAAGG
* * * *
2689881 GCTATCTGTCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAGGGCATATCAAATTTA
193 GTTATCTGTCAACAAAA-ACCTTCGAGTTCGATTACATTCAGCTCAAAGGCACATCAAATTTA
* * * * *
2689944 CAACATAACTCAAGGCGAGAATGGTTATCTGTCAACCAAGACCTTCGAGTTCGATTACACTCAAC
1 CAGCATAACTCAAGGCGAGAAGGGTTATATGTCAACAAAGACCTTCGAGTTCGATTACACTCAGC
* *
2690009 TCAAAGGCACATCAAATTTACAGTATAACTCAAGGTGAGAAGGGTTATCTGTCAACCAAGACCTT
66 TCAAAGGCACATCAAATTTACAGCATAACTCAAGGAGAGAAGGGTTATCTGTCAACCAAGACCTT
* * * *
2690074 CGAGATCGATTACACTCAGCTCAAAGGCACATCAAGTTCGTAGCATTACTCAAGGCTAGAAGGGT
131 CGAGTTCGATTACACTCAGCTCAAAGGCATATCAAATTC-TAGCATTACTCAAGGCAAGAAGGGT
* * * *
2690139 TATCTTTCAACGAAAAACCTTTGAGTTCGATTACATTCAACTCAAAGACACATCAAATTTA
195 TATCTGTCAAC-AAAAACCTTCGAGTTCGATTACATTCAGCTCAAAGGCACATCAAATTTA
* * *
2690200 CAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACCAAGACCTTCGAGTTTGATTACACTCAGC
1 CAGCATAACTCAAGGCGAGAAGGGTTATATGTCAACAAAGACCTTCGAGTTCGATTACACTCAGC
* * * * * * **
2690265 TCAAAGGTATATCAAATTTACAACATAGCTCAAGGCGAGAAGGGCTATCTGTCAATAAAAGACCT
66 TCAAAGGCACATCAAATTTACAGCATAACTCAAGGAGAGAAGGGTTATCTGTCAA-CCAAGACCT
* * * * * *
2690330 TCGAGTTTGATTACATTCAGCTCAAAGGTATATCTAACTTAC-AGCATAACTGAAGGCAAGAAGG
130 TCGAGTTCGATTACACTCAGCTCAAAGGCATATC-AAATT-CTAGCATTACTCAAGGCAAGAAGG
* * * *
2690394 GTTA-CATGTCAGCAAAGACCTTCGAGTTGGATTACATTCAGCTCAAAGGCACATGAAATTTA
193 GTTATC-TGTCAACAAAAACCTTCGAGTTCGATTACATTCAGCTCAAAGGCACATCAAATTTA
* * * * * * * * *
2690456 TAGCATAGCTC-AGGCAAGAAGGGATATATGTCGACAAATACCTTCGAGTTTGATTATATTCAGC
1 CAGCATAACTCAAGGCGAGAAGGGTTATATGTCAACAAAGACCTTCGAGTTCGATTACACTCAGC
2690520 TC
66 TC
2690522 GATGACATAT
Statistics
Matches: 500, Mismatches: 70, Indels: 17
0.85 0.12 0.03
Matches are distributed among these distances:
255 47 0.09
256 373 0.75
257 70 0.14
258 6 0.01
259 4 0.01
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (254 bp):
CAGCATAACTCAAGGCGAGAAGGGTTATATGTCAACAAAGACCTTCGAGTTCGATTACACTCAGC
TCAAAGGCACATCAAATTTACAGCATAACTCAAGGAGAGAAGGGTTATCTGTCAACCAAGACCTT
CGAGTTCGATTACACTCAGCTCAAAGGCATATCAAATTCTAGCATTACTCAAGGCAAGAAGGGTT
ATCTGTCAACAAAAACCTTCGAGTTCGATTACATTCAGCTCAAAGGCACATCAAATTTA
Found at i:2691743 original size:9 final size:9
Alignment explanation
Indices: 2691702--2691819 Score: 87
Period size: 9 Copynumber: 12.9 Consensus size: 9
2691692 ATTTTCCCAC
2691702 TTTTTATT-
1 TTTTTATTA
*
2691710 TATTTATTTA
1 TTTTTA-TTA
2691720 TTTCTT-TTA
1 TTT-TTATTA
2691729 TATTTTATTA
1 T-TTTTATTA
*
2691739 TTTTTTATCA
1 -TTTTTATTA
* *
2691749 GTATTATTA
1 TTTTTATTA
*
2691758 TTTCTATTA
1 TTTTTATTA
*
2691767 TTTCTATTA
1 TTTTTATTA
*
2691776 TTATTATTA
1 TTTTTATTA
*
2691785 TTATTATTA
1 TTTTTATTA
*
2691794 TTATTATTA
1 TTTTTATTA
*
2691803 TTATTATTA
1 TTTTTATTA
*
2691812 TTATTATT
1 TTTTTATT
2691820 TTTCCTTAGA
Statistics
Matches: 93, Mismatches: 11, Indels: 11
0.81 0.10 0.10
Matches are distributed among these distances:
8 5 0.05
9 71 0.76
10 14 0.15
11 3 0.03
ACGTcount: A:0.26, C:0.03, G:0.01, T:0.69
Consensus pattern (9 bp):
TTTTTATTA
Found at i:2691756 original size:3 final size:3
Alignment explanation
Indices: 2691729--2691819 Score: 111
Period size: 3 Copynumber: 31.3 Consensus size: 3
2691719 ATTTCTTTTA
* *
2691729 TAT T-T TAT TAT T-T T-T TAT CAG TAT TAT TAT T-T CTAT TAT T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT
2691770 CTAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2691816 TAT T
1 TAT T
2691820 TTTCCTTAGA
Statistics
Matches: 78, Mismatches: 4, Indels: 12
0.83 0.04 0.13
Matches are distributed among these distances:
2 8 0.10
3 68 0.87
4 2 0.03
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:2691937 original size:14 final size:13
Alignment explanation
Indices: 2691901--2691961 Score: 54
Period size: 13 Copynumber: 4.7 Consensus size: 13
2691891 ACATCTCTTC
**
2691901 TTTTTTATTATCC
1 TTTTTTATTATAA
2691914 TTTTTTATTATAA
1 TTTTTTATTATAA
*
2691927 TTTTTTAAT-TAA
1 TTTTTTATTATAA
*
2691939 -TTTTTACTTGATAT
1 TTTTTTA-TT-ATAA
2691953 TTTTTTATT
1 TTTTTTATT
2691962 TACCATCTAA
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
11 6 0.15
12 4 0.10
13 19 0.49
14 4 0.10
15 6 0.15
ACGTcount: A:0.23, C:0.05, G:0.02, T:0.70
Consensus pattern (13 bp):
TTTTTTATTATAA
Found at i:2694048 original size:9 final size:9
Alignment explanation
Indices: 2694034--2694091 Score: 55
Period size: 9 Copynumber: 6.3 Consensus size: 9
2694024 TTTAGTGTAC
2694034 TTTAATTTT
1 TTTAATTTT
2694043 TTTAATTTT
1 TTTAATTTT
* *
2694052 CTTAA-TGT
1 TTTAATTTT
*
2694060 TTTCATTTT
1 TTTAATTTT
*
2694069 TGTTAATTAT
1 T-TTAATTTT
2694079 TTTAATTTAT
1 TTTAATTT-T
2694089 TTT
1 TTT
2694092 CCATTTTTTG
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
8 5 0.13
9 22 0.58
10 11 0.29
ACGTcount: A:0.22, C:0.03, G:0.03, T:0.71
Consensus pattern (9 bp):
TTTAATTTT
Found at i:2694050 original size:27 final size:26
Alignment explanation
Indices: 2694020--2694084 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 26
2694010 AGATTTTCAT
*
2694020 ATTTTTTAGTGTACTTTAATTTTT-TTA
1 ATTTTTTAATGT--TTTAATTTTTGTTA
*
2694047 ATTTTCTTAATGTTTTCATTTTTGTTA
1 ATTTT-TTAATGTTTTAATTTTTGTTA
2694074 ATTATTTTAAT
1 ATT-TTTTAAT
2694085 TTATTTTCCA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
26 9 0.27
27 16 0.48
28 8 0.24
ACGTcount: A:0.23, C:0.05, G:0.06, T:0.66
Consensus pattern (26 bp):
ATTTTTTAATGTTTTAATTTTTGTTA
Found at i:2694220 original size:18 final size:18
Alignment explanation
Indices: 2694197--2694235 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
2694187 TTTTGATAAT
* *
2694197 TTTCTTTTTTTAATTTTA
1 TTTCTTTCTCTAATTTTA
*
2694215 TTTCTTTCTCTATTTTTA
1 TTTCTTTCTCTAATTTTA
2694233 TTT
1 TTT
2694236 TGGATAATTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.13, C:0.10, G:0.00, T:0.77
Consensus pattern (18 bp):
TTTCTTTCTCTAATTTTA
Found at i:2695953 original size:30 final size:27
Alignment explanation
Indices: 2695917--2695985 Score: 84
Period size: 30 Copynumber: 2.4 Consensus size: 27
2695907 CTTCATTTTT
*
2695917 TCATAGCATATATCATTCATTTAATTCATC
1 TCATAGCATATATCATTCA-CT--TTCATC
* *
2695947 TCATAGCCTGTATCATTCACTTTCATC
1 TCATAGCATATATCATTCACTTTCATC
2695974 TCATAGCATATA
1 TCATAGCATATA
2695986 CTTTTCACTT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
27 16 0.47
29 1 0.03
30 17 0.50
ACGTcount: A:0.30, C:0.23, G:0.06, T:0.41
Consensus pattern (27 bp):
TCATAGCATATATCATTCACTTTCATC
Found at i:2696778 original size:26 final size:26
Alignment explanation
Indices: 2696742--2696793 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
2696732 CATCTCAAGT
2696742 CTTCCTCATGTCATACTTATATAGAA
1 CTTCCTCATGTCATACTTATATAGAA
2696768 CTTCCTCATGTCATACTTATATAGAA
1 CTTCCTCATGTCATACTTATATAGAA
2696794 TAAGTAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (26 bp):
CTTCCTCATGTCATACTTATATAGAA
Found at i:2704635 original size:261 final size:264
Alignment explanation
Indices: 2704329--2704818 Score: 614
Period size: 261 Copynumber: 1.9 Consensus size: 264
2704319 CATGACGAAT
* * ** *
2704329 GATATTGGACTAGAAGAAGACCCAAAATTGACTTAACTTGCAATGGAGGAGTTGTCTGTAATTTA
1 GATATTGGACAAGAAGAAAACCCAAAATCAACTTAACTTGCAATGGAGGAGTCGTCTGTAATTTA
* * * * * **
2704394 GCTTAAGTTAGCAATGAGAAGCTACTTTCT-AACGTATATTTTGAGTCAG-TTTCAACTTCACGA
66 -CTTAACTCAACAATGAGAAGCTA-TTTCTCAACCTAGATTTCAAGTCAGATTTCAACTTCACGA
* * * * * *
2704457 TGAAGGATATCAGGCTTGAGTCATCCAACCTTTACTTAACTCAAAAT-GAAGGAG-C-TA-AACA
129 CGAAAGATATCAGGCTCGAGTCATCCAACATTGACTTAAATCAAAATAG-AGGAGTCTTATAACA
* *
2704518 TAGCTTAACTCAACATCGAGGAGCAATTTTCCAACCATGATTATTAAGTGAAATGTCAACTTCAC
193 TAGCTTAACTAAACAACGAGGAGCAATTTTCCAACCATGATTATTAAGTGAAATGTCAACTTCAC
2704583 AATAAAG
258 AATAAAG
**
2704590 GATATTGGACAAGAAGAAAACTTAAAATCAACTTAACTTGCAATGGAGGAGTCGTCTGTAATTTA
1 GATATTGGACAAGAAGAAAACCCAAAATCAACTTAACTTGCAATGGAGGAGTCGTCTGTAATTTA
* * *
2704655 CTTAACTCAACAATGAGGAGCTATTTTTCAGCCTAGATTTCAAGTCAGATTTCAACTTCACGACG
66 CTTAACTCAACAATGAGAAGCTATTTCTCAACCTAGATTTCAAGTCAGATTTCAACTTCACGACG
* * * **
2704720 AAAGATATCATGCTCGAGTCATTCAAGATTGACTTAAATCGCAATAGAGGAGTCATTTATAACAT
131 AAAGATATCAGGCTCGAGTCATCCAACATTGACTTAAATCAAAATAGAGGAGTC--TTATAACAT
*
2704785 AGCTTAACTAAACAACGAGGAGCTATTTTCCAAC
194 AGCTTAACTAAACAACGAGGAGCAATTTTCCAAC
2704819 TTGACCCACA
Statistics
Matches: 190, Mismatches: 31, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
259 4 0.02
260 33 0.17
261 113 0.59
262 2 0.01
265 2 0.01
266 36 0.19
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.29
Consensus pattern (264 bp):
GATATTGGACAAGAAGAAAACCCAAAATCAACTTAACTTGCAATGGAGGAGTCGTCTGTAATTTA
CTTAACTCAACAATGAGAAGCTATTTCTCAACCTAGATTTCAAGTCAGATTTCAACTTCACGACG
AAAGATATCAGGCTCGAGTCATCCAACATTGACTTAAATCAAAATAGAGGAGTCTTATAACATAG
CTTAACTAAACAACGAGGAGCAATTTTCCAACCATGATTATTAAGTGAAATGTCAACTTCACAAT
AAAG
Found at i:2715620 original size:258 final size:257
Alignment explanation
Indices: 2715083--2716157 Score: 1017
Period size: 258 Copynumber: 4.2 Consensus size: 257
2715073 ATAATATTTA
* * *
2715083 TGAAAAATGACAAAGCG-TTTTCAAAGTTTCTCATTTTAA-A-TTTCTAAAAATGAAATTTTTTA
1 TGAAAAATGAGAAAGCGATTTTCAAAGTTTCTCA-TTTAAGATTTTCAAAAAATGAAATTTTTGA
* * * * *
2715145 AAAGTAAGAAAGCGATTTCTAAAGTTTCTTACCTAGTAGACTATATCCAAAA-T--TAAGTGCTC
65 AAAGTAAGAAAGCGATTTCCAAAATTTCTTACCCAGTAGACTATTTCCAAAATTGGTAAGT-CTT
* * * * *
2715207 CAGGCCATTAGTAAGTCTTCCAAGCTTGATGATTAAATCCTTCGGGTCATCTATAAGTTTTTCGA
129 CAGGCCATCAGTAAGTCTTTCAAGCATGATGATTAAATCCTTCGAGTCATCTATAAGTCTTTCGA
* * ** * * * * *
2715272 GCAATATGATAAGT-CTTCCAGGCTATCTAAAAGACCTCCGGGCAAT-ATGTTTTCATATG--AC
194 ACAAGATGATAAGTCCTTTGA-GCCATCTATAAGACCTTCGGGC-ATGATGTTTCCATATGATAT
2715333 T
257 T
* * * * *
2715334 TGTAAAAAGGGAGAAAACGATATTCAAAATTTCTCATTTAAGATTTTCAGAAAATGAAATTTTTG
1 TG-AAAAA-TGAGAAAGCGATTTTCAAAGTTTCTCATTTAAGATTTTCAAAAAATGAAATTTTTG
* *
2715399 AAAAGTAAGAAAGTGACTTCCAAAATTTCTTACCCAGTAGACTATTTCCAAAATTGGTAAGTCAT
64 AAAAGTAAGAAAGCGATTTCCAAAATTTCTTACCCAGTAGACTATTTCCAAAATTGGTAAGTC-T
* * ** * * * *
2715464 TCAGGCAATCATTAAGTCTTTTGAGCATGATGATTAAATCCTCCAATTCATCTATAAATCTTTCG
128 TCAGGCCATCAGTAAGTCTTTCAAGCATGATGATTAAATCCTTCGAGTCATCTATAAGTCTTTCG
* * * *
2715529 AACAAGATAATAAGTCCTTAGAGTCATATATAAGACCTTCGGGCATGATGTTTCCATATGATATT
193 AACAAGATGATAAGTCCTTTGAGCCATCTATAAGACCTTCGGGCATGATGTTTCCATATGATATT
* * * * * **
2715594 TGAAAAACGAGAAAGTGATTTTCAAAATTTATCATTTCAGATTTTCAAAAAATGAAAAATTTGAA
1 TGAAAAATGAGAAAGCGATTTTCAAAGTTTCTCATTTAAGATTTTCAAAAAATGAAATTTTTGAA
* * ** *
2715659 AAGTAAGAAA--G---T----AATTTCTTACCCAATAGATTATTTTTTAAAATTTGTAAGTTCTT
66 AAGTAAGAAAGCGATTTCCAAAATTTCTTACCCAGTAGACTA-TTTCCAAAATTGGTAAG-TCTT
** * * * * * * *
2715715 CAGGTTATTAGTAAGTCTTTCGAGCATGATGATTAAATCTTTTGAGTCATTTGTCAGTCTTTC-A
129 CAGGCCATCAGTAAGTCTTTCAAGCATGATGATTAAATCCTTCGAGTCATCTATAAGTCTTTCGA
* * *
2715779 AGTAAAATGATAAGTCCTTTG-GACCATCTATAAGACCTTCAGGCATGATGTTTCCATATGATAT
194 A-CAAGATGATAAGTCCTTTGAG-CCATCTATAAGACCTTCGGGCATGATGTTTCCATATGATAT
2715843 T
257 T
* * * *
2715844 TGAAAAAAATGAGAAAGCGATATTCAAAGTTTCTCATCTAAGATTTTTAGAAAATGAAATTTTTG
1 TG--AAAAATGAGAAAGCGATTTTCAAAGTTTCTCATTTAAGATTTTCAAAAAATGAAATTTTTG
* * ** *
2715909 AAAATTAAGAAAGCGATTTTCAAAGGTTCTTACCCAGTAGACTATTTCCAAAATTGGCAAGTCAT
64 AAAAGTAAGAAAGCGATTTCCAAAATTTCTTACCCAGTAGACTATTTCCAAAATTGGTAAGTC-T
* * * *
2715974 TCGGGCCATCAGTAAGTCTTTCAAGCATGATGATTAAAT-CTTCGGGTCATCTATCAGTCCTTCG
128 TCAGGCCATCAGTAAGTCTTTCAAGCATGATGATTAAATCCTTCGAGTCATCTATAAGTCTTTCG
* * * * * * *
2716038 AGCAAGATGATAAGTCTTTTGGGCCATCTATAAAACCTTTC-GACATGATCTTTTCATATGGTAT
193 AACAAGATGATAAGTCCTTTGAGCCATCTATAAGACC-TTCGGGCATGATGTTTCCATAT-G-AT
*
2716102 TTT
255 ATT
* * * *
2716105 TGAGAGAATAAGAAAGTGATTTTCAAAGTTTCTCATTTAAAATTTTCAAAAAA
1 TGA-AAAATGAGAAAGCGATTTTCAAAGTTTCTCATTTAAGATTTTCAAAAAA
2716158 ATTGAAAAAA
Statistics
Matches: 666, Mismatches: 123, Indels: 61
0.78 0.14 0.07
Matches are distributed among these distances:
249 22 0.03
250 121 0.18
251 4 0.01
252 66 0.10
253 13 0.02
254 16 0.02
255 65 0.10
256 2 0.00
257 4 0.01
258 157 0.24
259 74 0.11
260 99 0.15
261 23 0.03
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.35
Consensus pattern (257 bp):
TGAAAAATGAGAAAGCGATTTTCAAAGTTTCTCATTTAAGATTTTCAAAAAATGAAATTTTTGAA
AAGTAAGAAAGCGATTTCCAAAATTTCTTACCCAGTAGACTATTTCCAAAATTGGTAAGTCTTCA
GGCCATCAGTAAGTCTTTCAAGCATGATGATTAAATCCTTCGAGTCATCTATAAGTCTTTCGAAC
AAGATGATAAGTCCTTTGAGCCATCTATAAGACCTTCGGGCATGATGTTTCCATATGATATT
Found at i:2721207 original size:20 final size:20
Alignment explanation
Indices: 2721179--2721222 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
2721169 ATATGCCGAG
* * *
2721179 AAATTAATAGAATAAAAAAT
1 AAATAAATAGAACAAAAAAC
2721199 AAATAAATAGAACAAAAAAC
1 AAATAAATAGAACAAAAAAC
2721219 AAAT
1 AAAT
2721223 CATACATTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.73, C:0.05, G:0.05, T:0.18
Consensus pattern (20 bp):
AAATAAATAGAACAAAAAAC
Found at i:2721437 original size:17 final size:17
Alignment explanation
Indices: 2721417--2721465 Score: 89
Period size: 17 Copynumber: 2.9 Consensus size: 17
2721407 ATAATGTTTT
2721417 AAAAAAGAATATAAATG
1 AAAAAAGAATATAAATG
2721434 AAAAAAGAATATAAATG
1 AAAAAAGAATATAAATG
*
2721451 CAAAAAGAATATAAA
1 AAAAAAGAATATAAA
2721466 ACAGGTAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.71, C:0.02, G:0.10, T:0.16
Consensus pattern (17 bp):
AAAAAAGAATATAAATG
Found at i:2721985 original size:269 final size:271
Alignment explanation
Indices: 2721457--2721998 Score: 1054
Period size: 270 Copynumber: 2.0 Consensus size: 271
2721447 AATGCAAAAA
2721457 GAATATAAAACAGGTAAAAACAAAGTTAGTTAAATTAAAAAAAAGGAAAATAAATAAAATAAAAA
1 GAATATAAAACAGGTAAAAACAAAGTTAGTTAAATTAAAAAAAAGGAAAATAAATAAAATAAAAA
2721522 ACAAACAAGAGCAAAACAAAAACAAAAAAATAAAAAAATATCAGATTAAATAAAATAAAAAAATA
66 ACAAACAAGAGCAAAACAAAAACAAAAAAATAAAAAAATATCAGATTAAATAAAATAAAAAAATA
2721587 ATTAGATCAAGATGTGAATTAAATATAAAAAAAAAGGAATGGACCAAATAAAAAGAAAATTAAAT
131 ATTAGATCAAGATGTGAATTAAATATAAAAAAAAAGGAATGGACCAAATAAAAAGAAAATTAAAT
2721652 ATATGGTAAATTTAAGAAGAAAATCGGGGTTAAAATTGAATTTAGGGTGCAAAATGAACTTTAAA
196 ATATGGTAAATTTAAGAAGAAAATCGGGGTTAAAATTGAATTTAGGGTGCAAAATGAACTTTAAA
2721717 AGCAAACAGGG
261 AGCAAACAGGG
2721728 GAATATAAAACAGGT-AAAACAAAGTTAGTTAAATTAAAAAAAAGGAAAATAAATAAAATAAAAA
1 GAATATAAAACAGGTAAAAACAAAGTTAGTTAAATTAAAAAAAAGGAAAATAAATAAAATAAAAA
2721792 ACAAACAAGAGCAAAACAAAAACAAAAAAATAAAAAAATATCAGATTAAATAAAATAAAAAAATA
66 ACAAACAAGAGCAAAACAAAAACAAAAAAATAAAAAAATATCAGATTAAATAAAATAAAAAAATA
2721857 ATTAGATCAAGATGTGAATT-AA-ATAAAAAAAAAGGAATGGACCAAATAAAAAGAAAATTAAAA
131 ATTAGATCAAGATGTGAATTAAATATAAAAAAAAAGGAATGGACCAAATAAAAAGAAAATT-AAA
2721920 TATATGGTAAATTTAAGAAGAAAATCGGGGTTAAAATTGAATTTAGGGTGCAAAATGAACTTTAA
195 TATATGGTAAATTTAAGAAGAAAATCGGGGTTAAAATTGAATTTAGGGTGCAAAATGAACTTTAA
2721985 AAGCAAACAGGG
260 AAGCAAACAGGG
2721997 GA
1 GA
2721999 CTGGAATTAT
Statistics
Matches: 270, Mismatches: 0, Indels: 4
0.99 0.00 0.01
Matches are distributed among these distances:
268 37 0.14
269 84 0.31
270 134 0.50
271 15 0.06
ACGTcount: A:0.61, C:0.06, G:0.14, T:0.19
Consensus pattern (271 bp):
GAATATAAAACAGGTAAAAACAAAGTTAGTTAAATTAAAAAAAAGGAAAATAAATAAAATAAAAA
ACAAACAAGAGCAAAACAAAAACAAAAAAATAAAAAAATATCAGATTAAATAAAATAAAAAAATA
ATTAGATCAAGATGTGAATTAAATATAAAAAAAAAGGAATGGACCAAATAAAAAGAAAATTAAAT
ATATGGTAAATTTAAGAAGAAAATCGGGGTTAAAATTGAATTTAGGGTGCAAAATGAACTTTAAA
AGCAAACAGGG
Found at i:2723005 original size:13 final size:13
Alignment explanation
Indices: 2722974--2723009 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
2722964 CCTGATACAA
2722974 AATA-AAATA-AT
1 AATATAAATATAT
2722985 AA-ATAAATATAT
1 AATATAAATATAT
2722997 AATATAAATATAT
1 AATATAAATATAT
2723010 TTTCAATACT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 1 0.05
11 7 0.32
12 4 0.18
13 10 0.45
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
AATATAAATATAT
Found at i:2723255 original size:5 final size:5
Alignment explanation
Indices: 2723160--2723254 Score: 163
Period size: 5 Copynumber: 19.0 Consensus size: 5
2723150 CACATATGAC
2723160 GTAAT GTAAT GTAAT GTAAT GTAAT GTAAT GTAAT GTAAT GTAAT GTAAT
1 GTAAT GTAAT GTAAT GTAAT GTAAT GTAAT GTAAT GTAAT GTAAT GTAAT
* * *
2723210 GTAAT GTAAT GTAAT GTAAT GTAAT GTAAT TTAAT ATAAT ATAAT
1 GTAAT GTAAT GTAAT GTAAT GTAAT GTAAT GTAAT GTAAT GTAAT
2723255 AACGTATAAA
Statistics
Matches: 88, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
5 88 1.00
ACGTcount: A:0.42, C:0.00, G:0.17, T:0.41
Consensus pattern (5 bp):
GTAAT
Found at i:2724751 original size:5 final size:5
Alignment explanation
Indices: 2724741--2724781 Score: 50
Period size: 5 Copynumber: 8.4 Consensus size: 5
2724731 TAAACCCACC
*
2724741 TTCTT TTCTT TTCTT TTCTT TT-TT AT-TT TTCTTT TTCTT TT
1 TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT TTC-TT TTCTT TT
2724782 ACATTTTCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
4 6 0.19
5 21 0.66
6 5 0.16
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (5 bp):
TTCTT
Found at i:2724787 original size:19 final size:18
Alignment explanation
Indices: 2724749--2724788 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
2724739 CCTTCTTTTC
**
2724749 TTTTCTTTTCTTTTTTAT
1 TTTTCTTTTCTTTTACAT
2724767 TTTTCTTTTTCTTTTACAT
1 TTTTC-TTTTCTTTTACAT
2724786 TTT
1 TTT
2724789 CAATTTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.07, C:0.12, G:0.00, T:0.80
Consensus pattern (18 bp):
TTTTCTTTTCTTTTACAT
Found at i:2724788 original size:18 final size:17
Alignment explanation
Indices: 2724741--2724789 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
2724731 TAAACCCACC
2724741 TTCTTTT-CTTTTCTTT
1 TTCTTTTACTTTTCTTT
* *
2724757 TCTTTTTTATTTTTCTTT
1 T-TCTTTTACTTTTCTTT
2724775 TTCTTTTACATTTTC
1 TTCTTTTAC-TTTTC
2724790 AATTTTTTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
16 1 0.04
17 11 0.42
18 14 0.54
ACGTcount: A:0.06, C:0.16, G:0.00, T:0.78
Consensus pattern (17 bp):
TTCTTTTACTTTTCTTT
Found at i:2724866 original size:7 final size:7
Alignment explanation
Indices: 2724854--2724886 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
2724844 TTCTCTTGTT
2724854 TTTTTCC
1 TTTTTCC
2724861 TTTTTCC
1 TTTTTCC
2724868 TTTTT-C
1 TTTTTCC
*
2724874 TTTTTTC
1 TTTTTCC
2724881 TTTTTC
1 TTTTTC
2724887 AACTTAGGAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
6 6 0.25
7 18 0.75
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (7 bp):
TTTTTCC
Found at i:2724873 original size:14 final size:14
Alignment explanation
Indices: 2724854--2724886 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
2724844 TTCTCTTGTT
2724854 TTTTTCCTTTTTCC
1 TTTTTCCTTTTTCC
*
2724868 TTTTT-CTTTTTTC
1 TTTTTCCTTTTTCC
2724881 TTTTTC
1 TTTTTC
2724887 AACTTAGGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTTTCCTTTTTCC
Found at i:2730972 original size:188 final size:189
Alignment explanation
Indices: 2730638--2731017 Score: 735
Period size: 188 Copynumber: 2.0 Consensus size: 189
2730628 AAACACAACC
2730638 CTCATATTCTACCATGTTGGTCGTGCAATTGAAATTCTGTCTACTAGTGAATGGGAAATGATTTC
1 CTCATATTCTACCA--TTGGTCGTGCAATTGAAATTCTGTCTACTAGTGAATGGGAAATGATTTC
2730703 CTTTAGGGGAGATCAATATTGCCCCAATGTCATGTCCTAATGCATTTGATGCACCATCAAAATGC
64 CTTTAGGGGAGATCAATATTGCCCCAATGTCATGTCCTAATGCATTTGATGCACCATCAAAATGC
2730768 ATTTTCAAGGAATCGCATGTGGAAGTACCCACTTTTTCTAAGGATATGGCCATCAAGTCTT
129 ATTTTCAAGGAATCGCATGTGGAAGTACCCACTTTTTCTAAGGATATGGCCATCAAGTCTT
2730829 CTCATATTCTACCA-TGGTCGTGCAATTGAAATTCTGTCTACTAGTGAATGGGAAATGATTTCCT
1 CTCATATTCTACCATTGGTCGTGCAATTGAAATTCTGTCTACTAGTGAATGGGAAATGATTTCCT
2730893 TTAGGGGAGATCAATATTGCCCCAATGTCATGTCCTAATGCATTTGATGCACCATCAAAATGCAT
66 TTAGGGGAGATCAATATTGCCCCAATGTCATGTCCTAATGCATTTGATGCACCATCAAAATGCAT
2730958 TTTCAAGGAATCGCATGTGGAAGTACCCACTTTTTCTAAGGATATGGCCATCAAGTCTT
131 TTTCAAGGAATCGCATGTGGAAGTACCCACTTTTTCTAAGGATATGGCCATCAAGTCTT
2731017 C
1 C
2731018 GTCTAGAAAG
Statistics
Matches: 189, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
188 175 0.93
191 14 0.07
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (189 bp):
CTCATATTCTACCATTGGTCGTGCAATTGAAATTCTGTCTACTAGTGAATGGGAAATGATTTCCT
TTAGGGGAGATCAATATTGCCCCAATGTCATGTCCTAATGCATTTGATGCACCATCAAAATGCAT
TTTCAAGGAATCGCATGTGGAAGTACCCACTTTTTCTAAGGATATGGCCATCAAGTCTT
Found at i:2735849 original size:18 final size:18
Alignment explanation
Indices: 2735826--2735895 Score: 61
Period size: 18 Copynumber: 3.9 Consensus size: 18
2735816 CAATTAAGAG
2735826 TTAGTTTAATAAATGAAC
1 TTAGTTTAATAAATGAAC
* **
2735844 TTAGTTTGATTTATGAAC
1 TTAGTTTAATAAATGAAC
* *
2735862 -TAGTTTAGTTAATGAAC
1 TTAGTTTAATAAATGAAC
* * *
2735879 TGACTTTATTAAATGAA
1 TTAGTTTAATAAATGAA
2735896 ATAGACGCTT
Statistics
Matches: 41, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
17 14 0.34
18 27 0.66
ACGTcount: A:0.37, C:0.06, G:0.14, T:0.43
Consensus pattern (18 bp):
TTAGTTTAATAAATGAAC
Found at i:2735876 original size:17 final size:17
Alignment explanation
Indices: 2735827--2735879 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
2735817 AATTAAGAGT
* *
2735827 TAGTTTAATAAATGAAC
1 TAGTTTAGTTAATGAAC
*
2735844 TTAGTTT-GATTTATGAAC
1 -TAGTTTAG-TTAATGAAC
2735862 TAGTTTAGTTAATGAAC
1 TAGTTTAGTTAATGAAC
2735879 T
1 T
2735880 GACTTTATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
17 15 0.52
18 14 0.48
ACGTcount: A:0.36, C:0.06, G:0.15, T:0.43
Consensus pattern (17 bp):
TAGTTTAGTTAATGAAC
Found at i:2751861 original size:78 final size:76
Alignment explanation
Indices: 2751768--2751986 Score: 311
Period size: 76 Copynumber: 2.9 Consensus size: 76
2751758 TAATGTATAT
* *
2751768 AAAATTTTTGAAAATATATGTATAATATATAGTTTTTGAAAACATTTTGAAAATATATATATAAT
1 AAAAATTTTAAAAATATAT-TATAATATATAGTTTTTGAAAACATTTTG-AAATATATATATAAT
2751833 ATATAGTTTTTTA
64 ATATAGTTTTTTA
* *
2751846 AAACATTTTAAAAATATATATATAATATATAGTTTTTTAAAACATTTTGAAA-ATATATATAATA
1 AAAAATTTTAAAAATATAT-TATAATATATAGTTTTTGAAAACATTTTGAAATATATATATAATA
2751910 TATAGTTTTTTA
65 TATAGTTTTTTA
* *
2751922 AAAAATTTTGAAAAAGTATA-TATAATATATAGTTTTTGAAAACA-TATG-TATATATATATAAT
1 AAAAATTTT-AAAAA-TATATTATAATATATAGTTTTTGAAAACATTTTGAAATATATATATAAT
2751984 ATA
64 ATA
2751987 GTTTTTGAAA
Statistics
Matches: 129, Mismatches: 9, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
74 1 0.01
75 17 0.13
76 55 0.43
77 8 0.06
78 48 0.37
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.44
Consensus pattern (76 bp):
AAAAATTTTAAAAATATATTATAATATATAGTTTTTGAAAACATTTTGAAATATATATATAATAT
ATAGTTTTTTA
Done.