Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold373
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: 3053563
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 16 of 20
Found at i:2279929 original size:33 final size:33
Alignment explanation
Indices: 2279892--2279958 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
2279882 CAAGAGTTGA
* * *
2279892 TCACTTCACTTTCACAACACATGAGTGAGCACT
1 TCACTTCACTCTCACAACACATGAATAAGCACT
* *
2279925 TCACTTCACTCTCACAGCGCATGAATAAGCACT
1 TCACTTCACTCTCACAACACATGAATAAGCACT
2279958 T
1 T
2279959 TGGTGCACTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.30, C:0.31, G:0.12, T:0.27
Consensus pattern (33 bp):
TCACTTCACTCTCACAACACATGAATAAGCACT
Found at i:2280321 original size:30 final size:30
Alignment explanation
Indices: 2280285--2280366 Score: 121
Period size: 30 Copynumber: 2.8 Consensus size: 30
2280275 AAATAAATTT
2280285 TTTATCAAGGGGGAGAAAATTTTTTAAACG
1 TTTATCAAGGGGGAGAAAATTTTTTAAACG
* *
2280315 TTTATCAAGGGGGAGAAAATCTTTTAAATG
1 TTTATCAAGGGGGAGAAAATTTTTTAAACG
* *
2280345 ATTATCAAGGAGGAG-AAATTTT
1 TTTATCAAGGGGGAGAAAATTTT
2280367 AAACGAGAGC
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
29 6 0.13
30 41 0.87
ACGTcount: A:0.38, C:0.06, G:0.23, T:0.33
Consensus pattern (30 bp):
TTTATCAAGGGGGAGAAAATTTTTTAAACG
Found at i:2282801 original size:34 final size:35
Alignment explanation
Indices: 2282733--2282804 Score: 94
Period size: 34 Copynumber: 2.1 Consensus size: 35
2282723 GTCTTTGTGA
** *
2282733 AAAGAATAAGCACAAAGGAATACAAATGACCTTTG
1 AAAGAATAAAAACAAAGGAATACAAAAGACCTTTG
2282768 AAAGAATAAAAACAAA-GAATACAAAAG-CTCTTTG
1 AAAGAATAAAAACAAAGGAATACAAAAGAC-CTTTG
2282802 AAA
1 AAA
2282805 TGTAGAAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
33 1 0.03
34 18 0.55
35 14 0.42
ACGTcount: A:0.57, C:0.12, G:0.14, T:0.17
Consensus pattern (35 bp):
AAAGAATAAAAACAAAGGAATACAAAAGACCTTTG
Found at i:2283158 original size:19 final size:20
Alignment explanation
Indices: 2283134--2283183 Score: 75
Period size: 19 Copynumber: 2.5 Consensus size: 20
2283124 CAATTCACTG
2283134 TGTATCGATACAAAG-AACA
1 TGTATCGATACAAAGCAACA
*
2283153 TGTATCGATACAAAGCAATA
1 TGTATCGATACAAAGCAACA
*
2283173 TTTATCGATAC
1 TGTATCGATAC
2283184 TTTCTAGGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (20 bp):
TGTATCGATACAAAGCAACA
Found at i:2283906 original size:15 final size:16
Alignment explanation
Indices: 2283861--2283903 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
2283851 CTCTCCCAAA
2283861 ATTTACAAAACAA-ATTT
1 ATTT-CAAAA-AATATTT
2283878 ATTTCAAAAAATATTT
1 ATTTCAAAAAATATTT
*
2283894 CTTTCAAAAA
1 ATTTCAAAAA
2283904 TATCTCTCTC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 2 0.08
16 18 0.75
17 4 0.17
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (16 bp):
ATTTCAAAAAATATTT
Found at i:2285221 original size:13 final size:13
Alignment explanation
Indices: 2285203--2285229 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2285193 ACATATTACT
2285203 TTGTATTGATACA
1 TTGTATTGATACA
2285216 TTGTATTGATACA
1 TTGTATTGATACA
2285229 T
1 T
2285230 GATCTTGGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.15, T:0.48
Consensus pattern (13 bp):
TTGTATTGATACA
Found at i:2285363 original size:33 final size:33
Alignment explanation
Indices: 2285298--2285367 Score: 88
Period size: 33 Copynumber: 2.1 Consensus size: 33
2285288 TTACCACTAT
* ** *
2285298 TTGTATCGATATATGGTACATTATATCGATACA
1 TTGTATCGATATATAGTACAAAATATCAATACA
2285331 TTGTATCGATATATAGTA-AAAAGTATCAATACA
1 TTGTATCGATATATAGTACAAAA-TATCAATACA
2285364 TTGT
1 TTGT
2285368 GCCTAACGGT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 2 0.06
33 30 0.94
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.39
Consensus pattern (33 bp):
TTGTATCGATATATAGTACAAAATATCAATACA
Found at i:2287059 original size:13 final size:13
Alignment explanation
Indices: 2287041--2287066 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2287031 CAATTTTTTG
2287041 TGTATCGATACAT
1 TGTATCGATACAT
2287054 TGTATCGATACAT
1 TGTATCGATACAT
2287067 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2291713 original size:15 final size:15
Alignment explanation
Indices: 2291693--2291723 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2291683 ATTTCGTTTG
*
2291693 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
2291708 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
2291723 G
1 G
2291724 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:2293556 original size:21 final size:21
Alignment explanation
Indices: 2293527--2293571 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
2293517 AAGTTTTCAT
*
2293527 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
2293547 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
2293569 TTT
1 TTT
2293572 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:2295806 original size:13 final size:13
Alignment explanation
Indices: 2295788--2295813 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2295778 CAATTTTTTG
2295788 TGTATCGATACAT
1 TGTATCGATACAT
2295801 TGTATCGATACAT
1 TGTATCGATACAT
2295814 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2297655 original size:3 final size:3
Alignment explanation
Indices: 2297644--2297677 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
2297634 ATCAAAGATA
*
2297644 ATG AAG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
2297678 AGTTGACTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.38, C:0.00, G:0.32, T:0.29
Consensus pattern (3 bp):
ATG
Found at i:2298160 original size:13 final size:13
Alignment explanation
Indices: 2298142--2298166 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2298132 CATGGAATAT
2298142 TGTATCGATACAA
1 TGTATCGATACAA
2298155 TGTATCGATACA
1 TGTATCGATACA
2298167 TGATGAACTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2299784 original size:3 final size:3
Alignment explanation
Indices: 2299776--2299800 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
2299766 AGATGATAAA
2299776 GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT G
2299801 GTGACTCGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:2303164 original size:13 final size:13
Alignment explanation
Indices: 2303146--2303172 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2303136 ACGATATTCT
2303146 TTGTATCGATACA
1 TTGTATCGATACA
2303159 TTGTATCGATACA
1 TTGTATCGATACA
2303172 T
1 T
2303173 GGGTTACTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2305853 original size:13 final size:13
Alignment explanation
Indices: 2305835--2305859 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2305825 TATGGCACAT
2305835 TGTATCGATACAA
1 TGTATCGATACAA
2305848 TGTATCGATACA
1 TGTATCGATACA
2305860 TGATGAATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2307054 original size:20 final size:18
Alignment explanation
Indices: 2307029--2307100 Score: 56
Period size: 20 Copynumber: 3.7 Consensus size: 18
2307019 TGCCAGCTTC
2307029 ATGTATCGATACAATTCACT
1 ATGTATCGATACAA--CACT
* *
2307049 ATGTATTGATATCAAGAGC-
1 ATGTATCGATA-CAACA-CT
*
2307068 ATGTATCGATACAAAGCAGT
1 ATGTATCGATAC-AA-CACT
2307088 ATGTATCGATACA
1 ATGTATCGATACA
2307101 TCTGGTGTGT
Statistics
Matches: 42, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
18 1 0.02
19 14 0.33
20 24 0.57
21 3 0.07
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.31
Consensus pattern (18 bp):
ATGTATCGATACAACACT
Found at i:2307160 original size:20 final size:20
Alignment explanation
Indices: 2307089--2307165 Score: 75
Period size: 20 Copynumber: 3.5 Consensus size: 20
2307079 CAAAGCAGTA
2307089 TGTATCGATACATCT-GGTG
1 TGTATCGATACATCTGGGTG
*
2307108 TGTATCGATACTTTCTAGGGTG
1 TGTATCGATAC-ATCT-GGGTG
2307130 CAATATGTATCGATACATCTGGGTG
1 -----TGTATCGATACATCTGGGTG
2307155 TGTATCGATAC
1 TGTATCGATAC
2307166 TTTCTAGGGT
Statistics
Matches: 48, Mismatches: 2, Indels: 15
0.74 0.03 0.23
Matches are distributed among these distances:
19 11 0.23
20 14 0.29
22 4 0.08
25 5 0.10
26 3 0.06
27 11 0.23
ACGTcount: A:0.23, C:0.16, G:0.25, T:0.36
Consensus pattern (20 bp):
TGTATCGATACATCTGGGTG
Found at i:2307169 original size:47 final size:46
Alignment explanation
Indices: 2307087--2307175 Score: 169
Period size: 47 Copynumber: 1.9 Consensus size: 46
2307077 TACAAAGCAG
2307087 TATGTATCGATACATCTGGTGTGTATCGATACTTTCTAGGGTGCAA
1 TATGTATCGATACATCTGGTGTGTATCGATACTTTCTAGGGTGCAA
2307133 TATGTATCGATACATCTGGGTGTGTATCGATACTTTCTAGGGT
1 TATGTATCGATACATCT-GGTGTGTATCGATACTTTCTAGGGT
2307176 TTTGACCTTT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
46 17 0.40
47 25 0.60
ACGTcount: A:0.22, C:0.15, G:0.25, T:0.38
Consensus pattern (46 bp):
TATGTATCGATACATCTGGTGTGTATCGATACTTTCTAGGGTGCAA
Found at i:2307496 original size:18 final size:18
Alignment explanation
Indices: 2307470--2307531 Score: 88
Period size: 18 Copynumber: 3.4 Consensus size: 18
2307460 ATGGTTATAG
* * *
2307470 AAATTTATGATTTTTTAA
1 AAATCTATGATTCTTAAA
2307488 AAATCTATGATTCTTAAA
1 AAATCTATGATTCTTAAA
*
2307506 AAATCTAAGATTCTTAAA
1 AAATCTATGATTCTTAAA
2307524 AAATCTAT
1 AAATCTAT
2307532 AATTTATGCT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 39 1.00
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.42
Consensus pattern (18 bp):
AAATCTATGATTCTTAAA
Found at i:2315427 original size:15 final size:15
Alignment explanation
Indices: 2315404--2315433 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2315394 GAATTTCTAG
2315404 TGAAATAATCTTCAA
1 TGAAATAATCTTCAA
*
2315419 TGAAGTAATCTTCAA
1 TGAAATAATCTTCAA
2315434 AGAGAAAACC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.33
Consensus pattern (15 bp):
TGAAATAATCTTCAA
Found at i:2315822 original size:19 final size:17
Alignment explanation
Indices: 2315787--2315821 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
2315777 ATGATTACTT
2315787 TTAAAAAAAGTATTATA
1 TTAAAAAAAGTATTATA
* *
2315804 TTAAAAAATGTATGATA
1 TTAAAAAAAGTATTATA
2315821 T
1 T
2315822 AATCAAATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.09, T:0.37
Consensus pattern (17 bp):
TTAAAAAAAGTATTATA
Found at i:2321370 original size:21 final size:21
Alignment explanation
Indices: 2321329--2321372 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
2321319 CTCCCCTTTA
* *
2321329 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
2321350 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
2321371 TC
1 TC
2321373 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:2323196 original size:13 final size:13
Alignment explanation
Indices: 2323178--2323216 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
2323168 ATAATCACCC
2323178 TGTATCGATACAA
1 TGTATCGATACAA
*
2323191 TGTATCGATACAT
1 TGTATCGATACAA
2323204 TGTATCGATACAA
1 TGTATCGATACAA
2323217 AGAAAAATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2325314 original size:15 final size:15
Alignment explanation
Indices: 2325294--2325324 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2325284 ATTTCGTTTG
*
2325294 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
2325309 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
2325324 G
1 G
2325325 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:2327156 original size:21 final size:21
Alignment explanation
Indices: 2327127--2327171 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
2327117 AAGTTTTCAT
*
2327127 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
2327147 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
2327169 TTT
1 TTT
2327172 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:2329406 original size:13 final size:13
Alignment explanation
Indices: 2329388--2329445 Score: 62
Period size: 13 Copynumber: 4.0 Consensus size: 13
2329378 CAATTTTTTG
2329388 TGTATCGATACAT
1 TGTATCGATACAT
2329401 TGTATCGATACATACTT
1 TGTATCGATAC--A--T
2329418 GGTGTATCGATACAT
1 --TGTATCGATACAT
2329433 TGTATCGATACAT
1 TGTATCGATACAT
2329446 ACTTGGTGTA
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 24 0.62
15 2 0.05
17 2 0.05
19 11 0.28
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2329428 original size:32 final size:32
Alignment explanation
Indices: 2329368--2329463 Score: 156
Period size: 32 Copynumber: 3.0 Consensus size: 32
2329358 TACAAGCTAA
** *
2329368 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATAC-ATACTTGGTGTATCGATACAT
2329401 TGTATCGATACATACTTGGTGTATCGATACAT
1 TGTATCGATACATACTTGGTGTATCGATACAT
2329433 TGTATCGATACATACTTGGTGTATCGATACA
1 TGTATCGATACATACTTGGTGTATCGATACA
2329464 AGTTTGGCTA
Statistics
Matches: 60, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
32 49 0.82
33 11 0.18
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.40
Consensus pattern (32 bp):
TGTATCGATACATACTTGGTGTATCGATACAT
Found at i:2329470 original size:19 final size:19
Alignment explanation
Indices: 2329401--2329463 Score: 84
Period size: 19 Copynumber: 3.6 Consensus size: 19
2329391 ATCGATACAT
2329401 TGTATCGATACATACTTGG
1 TGTATCGATACATACTTGG
2329420 TGTATCGATAC--A--T--
1 TGTATCGATACATACTTGG
2329433 TGTATCGATACATACTTGG
1 TGTATCGATACATACTTGG
2329452 TGTATCGATACA
1 TGTATCGATACA
2329464 AGTTTGGCTA
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
15 2 0.05
17 2 0.05
19 23 0.61
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.37
Consensus pattern (19 bp):
TGTATCGATACATACTTGG
Found at i:2331596 original size:13 final size:13
Alignment explanation
Indices: 2331578--2331603 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2331568 CAATTTTTTG
2331578 TGTATCGATACAT
1 TGTATCGATACAT
2331591 TGTATCGATACAT
1 TGTATCGATACAT
2331604 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2333514 original size:13 final size:13
Alignment explanation
Indices: 2333496--2333521 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2333486 TATTATTCAA
2333496 TGTATCGATACAT
1 TGTATCGATACAT
2333509 TGTATCGATACAT
1 TGTATCGATACAT
2333522 CATTCAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2333518 original size:33 final size:33
Alignment explanation
Indices: 2333476--2333541 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
2333466 GCCAAGGAAA
* *
2333476 TGTATCGATATATTATTCAATGTATCGATACAT
1 TGTATCGATACATCATTCAATGTATCGATACAT
2333509 TGTATCGATACATCATTCAATGTATCGATACAT
1 TGTATCGATACATCATTCAATGTATCGATACAT
2333542 GCAGGCAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.39
Consensus pattern (33 bp):
TGTATCGATACATCATTCAATGTATCGATACAT
Found at i:2333534 original size:20 final size:20
Alignment explanation
Indices: 2333474--2333541 Score: 69
Period size: 20 Copynumber: 3.8 Consensus size: 20
2333464 CTGCCAAGGA
* *
2333474 AATGTATCGATATATTATTC
1 AATGTATCGATACATCATTC
2333494 AATGTATCGAT--A-CA-T-
1 AATGTATCGATACATCATTC
2333509 --TGTATCGATACATCATTC
1 AATGTATCGATACATCATTC
2333527 AATGTATCGATACAT
1 AATGTATCGATACAT
2333542 GCAGGCAAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 14
0.73 0.02 0.25
Matches are distributed among these distances:
13 9 0.22
15 1 0.03
16 3 0.08
17 2 0.05
18 1 0.03
20 24 0.60
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (20 bp):
AATGTATCGATACATCATTC
Found at i:2333769 original size:15 final size:15
Alignment explanation
Indices: 2333749--2333783 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
2333739 TGCCAAGCCT
2333749 TATCTCCAGCCACCC
1 TATCTCCAGCCACCC
2333764 TATCTCCAGCCACCC
1 TATCTCCAGCCACCC
2333779 TATCT
1 TATCT
2333784 TCTCCCTAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.20, C:0.49, G:0.06, T:0.26
Consensus pattern (15 bp):
TATCTCCAGCCACCC
Found at i:2344695 original size:155 final size:155
Alignment explanation
Indices: 2344013--2344701 Score: 543
Period size: 155 Copynumber: 4.5 Consensus size: 155
2344003 CAAAAGTGTT
* *
2344013 CCTACGGGATACCTTCG--ATGTAGAAGTA-CCTGATAACCC-TAAAGGACTTAAAAA-GATTAT
1 CCTAGGGGATACCTTCGACATG-A-AAGTATCCTAAT-ACCCTTAAAGGACTTAAAAAGGA-TAT
* * * * * * *
2344073 AGATAAGGTGAACCTATCCT-AATACCTACTTTCGGCATAAAAGCAAACCCGGTGACAACCTAGG
62 AGATGAGGTAAACCTATCCTAAATACCCACCTTCGACATAAAAGCAGACCCAGTGACAACCTAGG
* * * **
2344137 ACTTGGTTTTAAAAAATT-TCAAAAATG-C
127 ACTCGATTTTGAAAAATTAT-GGAAATGCC
* * *** * * *
2344165 CCTACAAGGGATATCTTCGACA-GAGAA--ATGCCCGGTACCGC-TAAAAGCCTTAAAAAGAATA
1 CCT--AGGGGATACCTTCGACATGA-AAGTAT-CCTAATACC-CTTAAAGGACTTAAAAAGGATA
* ** ** * * **
2344226 TAGAAG-GGATGTACCTATCCTAAATACGTAACTTCGACGTAAAAGCAGACCCAGTGATGACCTA
61 TAGATGAGG-TAAACCTATCCTAAATACCCACCTTCGACATAAAAGCAGACCCAGTGACAACCTA
*
2344290 GGACTC-AGTTTT-AGAAAATTATGAAAATGCC
125 GGACTCGA-TTTTGA-AAAATTATGGAAATGCC
* * *
2344321 CCTAGGGGATACCTTCGACATGAAAGTATCCTAGTACCCTTAAAGGACTTAAAAATGATATAGCT
1 CCTAGGGGATACCTTCGACATGAAAGTATCCTAATACCCTTAAAGGACTTAAAAAGGATATAGAT
* * * * ** * * *
2344386 AAGATGAACCTATCCTAAATACCCACTTTCGACATAAAAGTGGACCCGGTGGCAACTTAGGACTC
66 GAGGTAAACCTATCCTAAATACCCACCTTCGACATAAAAGCAGACCCAGTGACAACCTAGGACTC
*
2344451 GATTTTGAAAAATTA-CGAGAATGCC
131 GATTTTGAAAAATTATGGA-AATGCC
* ** * * * * * * *
2344476 TCTAGAAGATACTTTCAACGTGAAAGTATCCTGATACCCTTTAAGGATTTAAAAAGGTTATAGAT
1 CCTAGGGGATACCTTCGACATGAAAGTATCCTAATACCCTTAAAGGACTTAAAAAGGATATAGAT
* * * *
2344541 GGGGTAAACCTATCCTAAATACCCACCTTC-AGTATAAAAGCAGACCTAGTGACAACCTAGGATT
66 GAGGTAAACCTATCCTAAATACCCACCTTCGA-CATAAAAGCAGACCCAGTGACAACCTAGGACT
*
2344605 CGATTTTGAAAAATTATGGAAATACC
130 CGATTTTGAAAAATTATGGAAATGCC
*
2344631 CCTAGGGGATACCTTCGACATGAAAGTA-CCTAATA-CCTCTAAATGACTTAAAAAGGATATTAG
1 CCTAGGGGATACCTTCGACATGAAAGTATCCTAATACCCT-TAAAGGACTTAAAAAGGATA-TAG
2344694 ATGAGGTA
64 ATGAGGTA
2344702 GAATGTTGAA
Statistics
Matches: 422, Mismatches: 89, Indels: 49
0.75 0.16 0.09
Matches are distributed among these distances:
152 4 0.01
153 8 0.02
154 94 0.22
155 303 0.72
156 13 0.03
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.25
Consensus pattern (155 bp):
CCTAGGGGATACCTTCGACATGAAAGTATCCTAATACCCTTAAAGGACTTAAAAAGGATATAGAT
GAGGTAAACCTATCCTAAATACCCACCTTCGACATAAAAGCAGACCCAGTGACAACCTAGGACTC
GATTTTGAAAAATTATGGAAATGCC
Found at i:2347347 original size:79 final size:78
Alignment explanation
Indices: 2347147--2347357 Score: 217
Period size: 79 Copynumber: 2.7 Consensus size: 78
2347137 TATTTTGGAG
* * * ** *
2347147 ATAATAACGGGGTTGGAGTATCCCCTTGAAAATAACGGGGTTGCAGTATCCCCGGTTGTGAAAAA
1 ATAA-AACCGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAAAAA
*
2347212 TCGATGATTAAGAA
65 TCAATGATTAAGAA
* * * * * *
2347226 ATAAAATCGAGATTGGAGTATCCCCTCAAAAATAATGAGGTTGGAGTATCCCCAATTATGAGAAA
1 ATAAAACCG-GGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAAAAA
*
2347291 TCAAT-ATTTTAGAA
65 TCAATGA-TTAAGAA
* * **
2347305 ATAAAGCCAGGGTTGGAGTATCCCCTCGGAGGTAACGGGGTTGGAGTATCCCC
1 ATAAAACC-GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCC
2347358 GATGAAATAA
Statistics
Matches: 106, Mismatches: 23, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
78 4 0.04
79 101 0.95
80 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (78 bp):
ATAAAACCGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAAAAAT
CAATGATTAAGAA
Found at i:2347368 original size:28 final size:28
Alignment explanation
Indices: 2347314--2347382 Score: 84
Period size: 28 Copynumber: 2.5 Consensus size: 28
2347304 AATAAAGCCA
** **
2347314 GGGTTGGAGTATCCCCTCGGAGGTAACG
1 GGGTTGGAGTATCCCCGAGGAAATAACG
*
2347342 GGGTTGGAGTATCCCCGATGAAATAACG
1 GGGTTGGAGTATCCCCGAGGAAATAACG
*
2347370 AGGTTGGAGTATC
1 GGGTTGGAGTATC
2347383 ATCGATTGTG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.23, C:0.17, G:0.36, T:0.23
Consensus pattern (28 bp):
GGGTTGGAGTATCCCCGAGGAAATAACG
Found at i:2347500 original size:211 final size:211
Alignment explanation
Indices: 2347267--2347956 Score: 1209
Period size: 211 Copynumber: 3.3 Consensus size: 211
2347257 ATAATGAGGT
* * *
2347267 TGGAGTATCCCCAATTATGAGAAATCAATATTTTAGAAATAAAGCCAGGGTTGGAGTATCCCCTC
1 TGGAGTATCCCCGATTATGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTATCCCCTC
*
2347332 GGAGGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCATCGATTGTGAAAA
66 GGAGGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTGTGAAAA
*
2347397 ATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCTCGATTAAAGGAAAATTGGTGTGTTG
131 ATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTGTTG
2347462 AAAATAAAACCGGGGA
196 AAAATAAAACCGGGGA
2347478 TGGAGTATCCCCGATTATGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTATCCCCTC
1 TGGAGTATCCCCGATTATGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTATCCCCTC
* *
2347543 GGAGGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTAGAGTATCCTTGATTGTGAAAA
66 GGAGGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTGTGAAAA
* *
2347608 ATTGGTATTTTTAGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTGTTG
131 ATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTGTTG
*
2347673 AAAATAAAACTGGGGA
196 AAAATAAAACCGGGGA
2347689 TGGAGTATCCCCGATTATGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTATCCCCTC
1 TGGAGTATCCCCGATTATGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTATCCCCTC
*
2347754 GGAGGTAACGGGGTTGGAGTATCCCTGATGAAATAACGAGGTTGGAGTATCCTCGATTGTGAAAA
66 GGAGGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTGTGAAAA
* * *
2347819 ATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGAAAAATTGGTATTTTG
131 ATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTGTTG
* *
2347884 AAAATAAAATCGGGGT
196 AAAATAAAACCGGGGA
* **
2347900 TGGAGTATCCCCGATTATGAGAAATTAATATTTTGGAAATAAAATCGGGGTTGGAGT
1 TGGAGTATCCCCGATTATGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGT
2347957 TTTCCCGATT
Statistics
Matches: 455, Mismatches: 24, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
211 455 1.00
ACGTcount: A:0.33, C:0.12, G:0.27, T:0.28
Consensus pattern (211 bp):
TGGAGTATCCCCGATTATGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTATCCCCTC
GGAGGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTGTGAAAA
ATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTGTTG
AAAATAAAACCGGGGA
Found at i:2347579 original size:28 final size:28
Alignment explanation
Indices: 2347523--2347594 Score: 81
Period size: 28 Copynumber: 2.6 Consensus size: 28
2347513 GAAATAAAGC
** **
2347523 CGGGGTTGGAGTATCCCCTCGGAGGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
2347551 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
* *
2347579 CGAGGTTAGAGTATCC
1 CGGGGTTGGAGTATCC
2347595 TTGATTGTGA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:2347750 original size:51 final size:51
Alignment explanation
Indices: 2347371--2347970 Score: 263
Period size: 52 Copynumber: 11.5 Consensus size: 51
2347361 GAAATAACGA
** * * * *
2347371 GGTTGGAGTATCATCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAGAAATTAGT-ATTTTGGAAATAAAATCGG
* * * * * * * *
2347423 AGTTGGAGTATCCTCGATTA-AAGGAAAATTGGTGTGTTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATTATGA-G-AAATTAGTATTTTGGAAATAAAATCGG
* * * **
2347475 GGATGGAGTATCCCCGATTATGAGAAATCAATATTTTGGAAATAAAGCCGG
1 GGTTGGAGTATCCCCGATTATGAGAAATTAGTATTTTGGAAATAAAATCGG
* *** *** *
2347526 GGTTGGAGTATCCCCTCGGAGGTA--ACGGGGTTGGAGTATCCCCGATGAAAT--AA-CGA
1 GGTTGGAGTAT-CCC-C-GA-TTATGA-GAAATT--AGTAT-TTTG--GAAATAAAATCGG
* ** * * * *
2347582 GGTTAGAGTATCCTTGATTGTGAAAAATTGGTATTTTTAGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAGAAATTAGTA-TTTTGGAAATAAAATCGG
* * * * * *
2347634 AGTTGGAGTATCCCCGATTA-AAGGAAAATTGGTGTGTTGAAAATAAAA-CTGG
1 GGTTGGAGTATCCCCGATTATGA-G-AAATTAGTATTTTGGAAATAAAATC-GG
* * * **
2347686 GGATGGAGTATCCCCGATTATGAGAAATCAATATTTTGGAAATAAAGCCGG
1 GGTTGGAGTATCCCCGATTATGAGAAATTAGTATTTTGGAAATAAAATCGG
* *** ** *
2347737 GGTTGGAGTATCCCCTCGGAGGTA--ACGGGGTTGGAGTATCCCTGATGAAAT--AA-CGA
1 GGTTGGAGTAT-CCC-C-GA-TTATGA-GAAATT--AGTAT-TTTG--GAAATAAAATCGG
* * * * *
2347793 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAGAAATTAGT-ATTTTGGAAATAAAATCGG
* * * * *
2347845 AGTTGGAGTATCCCCGATTAAAGAAAAATTGGTATTTTGAAAATAAAATCGG
1 GGTTGGAGTATCCCCGATT-ATGAGAAATTAGTATTTTGGAAATAAAATCGG
*
2347897 GGTTGGAGTATCCCCGATTATGAGAAATTAATATTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAGAAATTAGTATTTTGGAAATAAAATCGG
* *
2347948 GGTTGGAGTTTTCCCGATTATGA
1 GGTTGGAGTATCCCCGATTATGA
2347971 ACAATTGAGA
Statistics
Matches: 402, Mismatches: 105, Indels: 83
0.68 0.18 0.14
Matches are distributed among these distances:
49 10 0.02
51 120 0.30
52 164 0.41
53 41 0.10
54 11 0.03
55 8 0.02
56 33 0.08
57 5 0.01
59 10 0.02
ACGTcount: A:0.32, C:0.11, G:0.27, T:0.29
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAGAAATTAGTATTTTGGAAATAAAATCGG
Found at i:2347790 original size:28 final size:27
Alignment explanation
Indices: 2347734--2347805 Score: 83
Period size: 28 Copynumber: 2.6 Consensus size: 27
2347724 GAAATAAAGC
**
2347734 CGGGGTTGGAGTATCCCCTCGGAGGTAA
1 CGGGGTTGGAGTAT-CCCTCGGAAATAA
2347762 CGGGGTTGGAGTATCCCT-GATGAAATAA
1 CGGGGTTGGAGTATCCCTCG--GAAATAA
*
2347790 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
2347806 TCGATTGTGA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
26 1 0.03
27 4 0.10
28 34 0.87
ACGTcount: A:0.22, C:0.18, G:0.36, T:0.24
Consensus pattern (27 bp):
CGGGGTTGGAGTATCCCTCGGAAATAA
Found at i:2350329 original size:13 final size:13
Alignment explanation
Indices: 2350311--2350336 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2350301 TAAAAGATCG
2350311 ATGTATCGATACA
1 ATGTATCGATACA
2350324 ATGTATCGATACA
1 ATGTATCGATACA
2350337 TTTCCTTGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2350378 original size:13 final size:13
Alignment explanation
Indices: 2350360--2350443 Score: 60
Period size: 13 Copynumber: 5.5 Consensus size: 13
2350350 AGCTTCGTAG
2350360 CGATACATTGTAT
1 CGATACATTGTAT
2350373 CGATACAAAACTTATGTAT
1 CGATAC---A-TT--GTAT
2350392 CGATACATTGTAT
1 CGATACATTGTAT
2350405 CGATACAAAACTTATGTAT
1 CGATAC---A--T-TGTAT
2350424 CGATACATTGTAT
1 CGATACATTGTAT
2350437 CGATACA
1 CGATACA
2350444 ACACTTATGT
Statistics
Matches: 59, Mismatches: 0, Indels: 24
0.71 0.00 0.29
Matches are distributed among these distances:
13 28 0.47
14 1 0.02
15 2 0.03
16 4 0.07
17 2 0.03
18 1 0.02
19 21 0.36
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:2350392 original size:19 final size:18
Alignment explanation
Indices: 2350368--2350462 Score: 93
Period size: 19 Copynumber: 5.7 Consensus size: 18
2350358 AGCGATACAT
2350368 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
2350387 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
2350400 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
2350419 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
2350432 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
2350451 TGTATCGATACA
1 TGTATCGATACA
2350463 TTTACTGAAT
Statistics
Matches: 64, Mismatches: 0, Indels: 24
0.73 0.00 0.27
Matches are distributed among these distances:
13 22 0.34
14 2 0.03
16 4 0.06
18 2 0.03
19 34 0.53
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.34
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:2350401 original size:32 final size:32
Alignment explanation
Indices: 2350360--2350464 Score: 201
Period size: 32 Copynumber: 3.3 Consensus size: 32
2350350 AGCTTCGTAG
2350360 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
2350392 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
*
2350424 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
2350456 CGATACATT
1 CGATACATT
2350465 TACTGAATGT
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
32 72 1.00
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.34
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:2350547 original size:21 final size:21
Alignment explanation
Indices: 2350521--2350576 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
2350511 GTTGGGACCT
*
2350521 TGTATCGATACATTCTACAAA
1 TGTATCGATACATTATACAAA
2350542 TGTATCGATACATTATACAAA
1 TGTATCGATACATTATACAAA
*
2350563 TGTATTGATACATT
1 TGTATCGATACATT
2350577 TGGATAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTATACAAA
Found at i:2351542 original size:61 final size:59
Alignment explanation
Indices: 2351285--2352285 Score: 1036
Period size: 55 Copynumber: 17.3 Consensus size: 59
2351275 AAGTGCATCT
*
2351285 TGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT-----GAAAGGCGTCC
1 TGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAGGCGTCC
*
2351340 TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTAGGCTTT---AAG--AGGTC-TCC
1 TGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAGG-CGTCC
* *
2351395 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-----GAAAGGTGTCC
1 TGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAGGCGTCC
* * * * *
2351450 TGCTCTTTGGGGATTGAAAGGTGCCACCAACTTGTGTGGGCTTCGAAAAGAAAAAGCATCC
1 TGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTGAAAAG-AAAGGCGTCC
* * *
2351511 TGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTAGGCTTT-----GAAAGGCATCC
1 TGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAGGCGTCC
* * * *
2351566 TGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGGAAAGAAAAAGCATCC
1 TGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAG-AAAGGCGTCC
* *
2351627 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAGGCGTCC
1 TGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGA-AAGGCGTCC
*
2351688 TGCTCTTTG-GGACTGAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCGTCC
1 TGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAG-AAAGGCGTCC
* * * * *
2351746 TGCTCTTTGAGGACTGCAAAATGCCACCAACTTGTGTTGGCTTTGAAAAAAAAAAGCATCC
1 TGCTCTTTGAGGACTG-AAAGTGCCACCAACTTGTGTGGGCTTTG-AAAAGAAAGGCGTCC
*
2351807 TGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGCGTGGGCTTT-AAAAGAAAAGGCGTCC
1 TGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTGAAAAG-AAAGGCGTCC
* *
2351866 TGCTCTTTGAAGACTGAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAG--A--CGTCC
1 TGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAGGCGTCC
* * *
2351920 TACTTTTTGAGGGCTGAAAGGTGCCACCAACTTGTGT-GGCTTT-----GAAAGGCGTCC
1 TGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAGGCGTCC
* * *
2351974 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAGGTGTCC
1 TGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTGAAAAGA-AAGGCGTCC
2352035 TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-----GAAAGGCGTCC
1 TGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAGGCGTCC
* * * * *
2352090 AGCTCTTTAAGGACTGAAAAGTGCCACCAACTTGTGTGGTCTTTGAAAGGAGAAGGTGTCC
1 TGCTCTTTGAGGACTG-AAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGA-AAGGCGTCC
*
2352151 TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTATGGGCTTT-----GAAAGGCGTCC
1 TGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAGGCGTCC
* * * * *
2352206 TGCTTTTTGGGGATTGAAAAATGCCACCAACTTGTGTGGGCTTT-AAAAGGAGAAGGCATCC
1 TGCTCTTTGAGGACTG-AAAGTGCCACCAACTTGTGTGGGCTTTGAAAA-GA-AAGGCGTCC
2352267 TGCTCTTTGAGGACT-AAAG
1 TGCTCTTTGAGGACTGAAAG
2352286 GGAGAAAGGA
Statistics
Matches: 814, Mismatches: 74, Indels: 112
0.81 0.07 0.11
Matches are distributed among these distances:
50 1 0.00
52 1 0.00
53 1 0.00
54 70 0.09
55 285 0.35
56 17 0.02
57 1 0.00
58 26 0.03
59 89 0.11
60 64 0.08
61 251 0.31
62 8 0.01
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (59 bp):
TGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAGGCGTCC
Found at i:2351554 original size:116 final size:110
Alignment explanation
Indices: 2351285--2352286 Score: 1058
Period size: 116 Copynumber: 8.7 Consensus size: 110
2351275 AAGTGCATCT
*
2351285 TGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGA
1 TGCTCTTTGAGGACTGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGA
*
2351350 GGACTGAAAGGTGCCACCAACTTGTGTAGGCTTT--AAGAG-GTCTCC
65 GGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAGCG--TCC
* *
2351395 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGG
1 TGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGA
* * *
2351460 GGATTGAAAGGTGCCACCAACTTGTGTGGGCTTCGAAAAGAAAAAGCATCC
65 GGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG-AAAG----AGCGTCC
* *
2351511 TGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTAGGCTTTGAAAGGCATCCTGCTCTTTGA
1 TGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGA
* *
2351576 GGACTAGAAA-ATGCCACCAACTTGTGTGGGCTTTGGAAAGAAAAAGCATCC
65 GGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-GAAAG----AGCGTCC
2351627 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAGGCGTCCTGCT
1 TGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTT-----GA-AAGGCGTCCTGCT
*
2351692 CTTTG-GGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCC
59 CTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG---A-GCGTCC
* * *
2351746 TGCTCTTTGAGGACTGCAAAATGCCACCAACTTGTGTTGGCTTTGAAAAAAAAAAGCATCCTGCT
1 TGCTCTTTGAGGACTG-AAAATGCCACCAACTTGTGTGGGCTTTG------AAAGGCGTCCTGCT
* *
2351811 CTTTGAGGACT-AAAGGTGCCACCAACTTGCGTGGGCTTTAAAAGAAAAGGCGTCC
59 CTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG---A-GCGTCC
* ** * * * *
2351866 TGCTCTTTGAAGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGACGTCCTACTTTTTGAG
1 TGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAG
*
2351931 GGCTGAAAGGTGCCACCAACTTGTGT-GGCTTTGAAAG-GCGTCC
66 GACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAGCGTCC
*
2351974 TGCTCTTTGAGGACT-AAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAGGTGTCCTGC
1 TGCTCTTTGAGGACTGAAAA--TGCCACCAACTTGTGTGGGCTTT-----GA-AAGGCGTCCTGC
2352038 TCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG-GCGTCC
58 TCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAGCGTCC
* * * *
2352090 AGCTCTTTAAGGACTGAAAAGTGCCACCAACTTGTGTGGTCTTTGAAAGGAGAAGGTGTCCTGCT
1 TGCTCTTTGAGGACTGAAAA-TGCCACCAACTTGTGTGGGCTTT-----GA-AAGGCGTCCTGCT
*
2352155 CTTTGAGGACTGAAAGGTGCCACCAACTTGTATGGGCTTTGAAAG-GCGTCC
59 CTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAGCGTCC
* * * *
2352206 TGCTTTTTGGGGATTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCATCCTGCT
1 TGCTCTTTGAGGACTG-AAAATGCCACCAACTTGTGTGGGCTTT-----GA-AAGGCGTCCTGCT
2352271 CTTTGAGGACT-AAAGG
59 CTTTGAGGACTGAAAGG
2352287 GAGAAAGGAG
Statistics
Matches: 792, Mismatches: 60, Indels: 75
0.85 0.06 0.08
Matches are distributed among these distances:
107 2 0.00
108 20 0.03
109 23 0.03
110 88 0.11
111 4 0.01
113 32 0.04
114 22 0.03
115 46 0.06
116 332 0.42
117 15 0.02
118 5 0.01
119 92 0.12
120 87 0.11
121 7 0.01
122 17 0.02
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (110 bp):
TGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAG
GACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAGCGTCC
Found at i:2351960 original size:26 final size:26
Alignment explanation
Indices: 2351931--2352012 Score: 60
Period size: 26 Copynumber: 3.1 Consensus size: 26
2351921 ACTTTTTGAG
2351931 GGCTGAAAGGTGCCACCAACTTGTGT
1 GGCTGAAAGGTGCCACCAACTTGTGT
* ** * *
2351957 GGCTTTGAAAGGCGTCCTGC-TCTT-TGA
1 GGC--TGAAAGGTG-CCACCAACTTGTGT
*
2351984 GGACTAAAAGGTGCCACCAACTTGTGT
1 GG-CTGAAAGGTGCCACCAACTTGTGT
2352011 GG
1 GG
2352013 GCTTTGAAAG
Statistics
Matches: 39, Mismatches: 11, Indels: 11
0.64 0.18 0.18
Matches are distributed among these distances:
25 3 0.08
26 13 0.33
27 8 0.21
28 12 0.31
29 3 0.08
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.26
Consensus pattern (26 bp):
GGCTGAAAGGTGCCACCAACTTGTGT
Found at i:2351965 original size:28 final size:28
Alignment explanation
Indices: 2351934--2352023 Score: 71
Period size: 28 Copynumber: 3.2 Consensus size: 28
2351924 TTTTGAGGGC
2351934 TGAAAGGTGCCACCAACTTGTGTGGCTT
1 TGAAAGGTGCCACCAACTTGTGTGGCTT
* ** * *
2351962 TGAAAGGCGTCCTGC-TCTT-TGAGGAC--
1 TGAAAGGTG-CCACCAACTTGTGTGG-CTT
*
2351988 TAAAAGGTGCCACCAACTTGTGTGGGCTT
1 TGAAAGGTGCCACCAACTTGTGT-GGCTT
2352017 TGAAAGG
1 TGAAAGG
2352024 AGAAGGTGTC
Statistics
Matches: 43, Mismatches: 12, Indels: 13
0.63 0.18 0.19
Matches are distributed among these distances:
25 3 0.07
26 10 0.23
27 7 0.16
28 14 0.33
29 9 0.21
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (28 bp):
TGAAAGGTGCCACCAACTTGTGTGGCTT
Found at i:2352084 original size:29 final size:29
Alignment explanation
Indices: 2352049--2352139 Score: 73
Period size: 29 Copynumber: 3.2 Consensus size: 29
2352039 CTTTGAGGAC
*
2352049 TGAAAGGTGCCACCAACTTGTGTGGGCTT
1 TGAAAGGTGCCACCAACTTGTGTGGACTT
* * * **
2352078 TGAAAGGCGTCCAGC-TCTT-TAAGGAC--
1 TGAAAGGTG-CCACCAACTTGTGTGGACTT
* *
2352104 TGAAAAGTGCCACCAACTTGTGTGGTCTT
1 TGAAAGGTGCCACCAACTTGTGTGGACTT
2352133 TGAAAGG
1 TGAAAGG
2352140 AGAAGGTGTC
Statistics
Matches: 43, Mismatches: 14, Indels: 10
0.64 0.21 0.15
Matches are distributed among these distances:
25 4 0.09
26 10 0.23
27 4 0.09
28 4 0.09
29 17 0.40
30 4 0.09
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (29 bp):
TGAAAGGTGCCACCAACTTGTGTGGACTT
Found at i:2352376 original size:100 final size:101
Alignment explanation
Indices: 2352195--2352384 Score: 301
Period size: 100 Copynumber: 1.9 Consensus size: 101
2352185 TATGGGCTTT
* * * *
2352195 GAAAGGCGTCCTGCTTTTTGGGGATTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAGAA
1 GAAAGGCGTCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAA
*
2352260 GGCATCCTGCTCTTTGAGGACTAAAGGGAGAAAGGA
66 GGCATCCTGCTATTTGAGGACTAAAGGGAGAAAGGA
** *
2352296 GAAA-GCGTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAA
1 GAAAGGCGTCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAA
2352360 GGCATCCTGCTATTTGAGGACTAAA
66 GGCATCCTGCTATTTGAGGACTAAA
2352385 AAGCGGAAGG
Statistics
Matches: 81, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
100 77 0.95
101 4 0.05
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.24
Consensus pattern (101 bp):
GAAAGGCGTCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAA
GGCATCCTGCTATTTGAGGACTAAAGGGAGAAAGGA
Found at i:2353371 original size:9 final size:9
Alignment explanation
Indices: 2353354--2353400 Score: 58
Period size: 9 Copynumber: 4.9 Consensus size: 9
2353344 TAGATTCTTC
*
2353354 TTTTTTTTT
1 TTTTTTTTG
2353363 TTCTTTTTTG
1 TT-TTTTTTG
2353373 TTTTTTTTG
1 TTTTTTTTG
2353382 TTTTTTGTTG
1 TTTTTT-TTG
2353392 TTGTTTTTT
1 TT-TTTTTT
2353401 TATAGAAAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
9 15 0.44
10 15 0.44
11 4 0.12
ACGTcount: A:0.00, C:0.02, G:0.11, T:0.87
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:2353378 original size:16 final size:16
Alignment explanation
Indices: 2353348--2353390 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
2353338 CTTAAGTAGA
*
2353348 TTCTTCTTT-TTTTTT
1 TTCTTTTTTGTTTTTT
2353363 TTCTTTTTTGTTTTTT
1 TTCTTTTTTGTTTTTT
*
2353379 TTGTTTTTTGTT
1 TTCTTTTTTGTT
2353391 GTTGTTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 8 0.32
16 17 0.68
ACGTcount: A:0.00, C:0.07, G:0.07, T:0.86
Consensus pattern (16 bp):
TTCTTTTTTGTTTTTT
Found at i:2353385 original size:22 final size:21
Alignment explanation
Indices: 2353354--2353401 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
2353344 TAGATTCTTC
*
2353354 TTTTTTTTTTTCTT-TT-TTG
1 TTTTTTTTTTTTTTGTTGTTG
2353373 TTTTTTTTGTTTTTTGTTGTTG
1 TTTTTTTT-TTTTTTGTTGTTG
2353395 TTTTTTT
1 TTTTTTT
2353402 ATAGAAAAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 8 0.32
20 5 0.20
21 2 0.08
22 10 0.40
ACGTcount: A:0.00, C:0.02, G:0.10, T:0.88
Consensus pattern (21 bp):
TTTTTTTTTTTTTTGTTGTTG
Found at i:2365917 original size:79 final size:79
Alignment explanation
Indices: 2365820--2366020 Score: 237
Period size: 79 Copynumber: 2.6 Consensus size: 79
2365810 AATAACGAGG
* * * *
2365820 TTGGAGTAT-CCCTTGAAAATAACGGGGTTGGAGTATCCCCGGTTGTGAAAAATCGATGA-TTAG
1 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATCAAT-ATTTAG
*
2365883 GAAAATAAA-TCAGGA
65 G-AAATAAAGCCAGGA
** * *
2365898 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCTAATTATGAGAAATCAATATTTTGG
1 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATCAATATTTAGG
* *
2365963 AAATAAAGCCGGGG
66 AAATAAAGCCAGGA
* **
2365977 TTGGAGTATCCCCTCGGAGGTAACGGGGTTGGAGTATCCCCGAT
1 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGAT
2366021 GAAATAAGAG
Statistics
Matches: 104, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
78 17 0.16
79 87 0.84
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.26
Consensus pattern (79 bp):
TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATCAATATTTAGG
AAATAAAGCCAGGA
Found at i:2366100 original size:52 final size:52
Alignment explanation
Indices: 2366031--2366425 Score: 189
Period size: 52 Copynumber: 7.6 Consensus size: 52
2366021 GAAATAAGAG
* * *
2366031 GTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCAGA
1 GTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTTGGAAATAAAATCGGA
* * * * *
2366083 GTTGGAGTATCCCCGATTAAAGGAAAATTGGTG-TGTTGAAAATAAAA-CTGGG
1 GTTGGAGTATCCCCGATT-ATGAAAAATTGGTGTTTTTGGAAATAAAATC-GGA
* * *** * ** *
2366135 GATGGAGTATCCCCGATTATGAGAAATCAAT-ATTTTGGAAATAAAGCCGGG
1 GTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTTGGAAATAAAATCGGA
**** * *** * ***
2366186 GTTGGAGTATCCCCTCGGAGGTAACGGGGTTGGAGTATCCCCGATGAAAT--AA-C-GA
1 GTTGGAGTATCCCCGATTATG-AA--AAATTGGTGT-T-TTTG--GAAATAAAATCGGA
* ** * * *
2366241 GGTTAGAGTATCCTTGATTGTGAAAAATTGGTATTTTTAGAAATAAAATCGGA
1 -GTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTTGGAAATAAAATCGGA
* * * *
2366294 GTTGGAGTATCCCCGATTAAAGGAAAATTGGTG-TTTTGAAAATAAAATCGGG
1 GTTGGAGTATCCCCGATT-ATGAAAAATTGGTGTTTTTGGAAATAAAATCGGA
* * ** * *
2366346 GTTGGAGTTTCCCCGATTATGAGAAATTAAT-ATTTTGGAAATAAAAGT-GGG
1 GTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTTGGAAATAAAA-TCGGA
* *
2366397 GTTGGAGTATCCTCGATTATGAACAATTG
1 GTTGGAGTATCCCCGATTATGAAAAATTG
2366426 AGAAACTTAA
Statistics
Matches: 245, Mismatches: 78, Indels: 41
0.67 0.21 0.11
Matches are distributed among these distances:
49 5 0.02
51 87 0.36
52 100 0.41
53 28 0.11
54 1 0.00
55 3 0.01
56 14 0.06
57 2 0.01
59 5 0.02
ACGTcount: A:0.33, C:0.11, G:0.27, T:0.30
Consensus pattern (52 bp):
GTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTTGGAAATAAAATCGGA
Found at i:2366180 original size:210 final size:211
Alignment explanation
Indices: 2365921--2366408 Score: 829
Period size: 211 Copynumber: 2.3 Consensus size: 211
2365911 TCGAAAATAA
**
2365921 CGGGGTTGGAGTATCCCTAATTATGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTAT
*
2365986 CCCCTCGGAGGTAACGGGGTTGGAGTATCCCCGATGAAATAA-GAGGTTGGAGTATCCTCGATTG
66 CCCCTCGGAGGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTAGAGTATCCTCGATTG
* *
2366050 TGAAAAATTGGTGTTTTTGGAAATAAAATCAGAGTTGGAGTATCCCCGATTAAAGGAAAATTGGT
131 TGAAAAATTGGTATTTTTAGAAATAAAATCAGAGTTGGAGTATCCCCGATTAAAGGAAAATTGGT
2366115 GTGTTGAAAATAAAA-
196 GTGTTGAAAATAAAAT
*
2366130 CTGGGGATGGAGTATCCCCGATTATGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTA
1 C-GGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTA
*
2366195 TCCCCTCGGAGGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTAGAGTATCCTTGATT
65 TCCCCTCGGAGGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTAGAGTATCCTCGATT
*
2366260 GTGAAAAATTGGTATTTTTAGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTGG
130 GTGAAAAATTGGTATTTTTAGAAATAAAATCAGAGTTGGAGTATCCCCGATTAAAGGAAAATTGG
*
2366325 TGTTTTGAAAATAAAAT
195 TGTGTTGAAAATAAAAT
* * *
2366342 CGGGGTTGGAGTTTCCCCGATTATGAGAAATTAATATTTTGGAAATAAAAG-TGGGGTTGGAGTA
1 CGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTGGAAAT-AAAGCCGGGGTTGGAGTA
2366406 TCC
65 TCC
2366409 TCGATTATGA
Statistics
Matches: 262, Mismatches: 13, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
209 1 0.00
210 103 0.39
211 153 0.58
212 5 0.02
ACGTcount: A:0.32, C:0.12, G:0.28, T:0.28
Consensus pattern (211 bp):
CGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTAT
CCCCTCGGAGGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTAGAGTATCCTCGATTG
TGAAAAATTGGTATTTTTAGAAATAAAATCAGAGTTGGAGTATCCCCGATTAAAGGAAAATTGGT
GTGTTGAAAATAAAAT
Found at i:2366238 original size:28 final size:28
Alignment explanation
Indices: 2366182--2366253 Score: 81
Period size: 28 Copynumber: 2.6 Consensus size: 28
2366172 GAAATAAAGC
** **
2366182 CGGGGTTGGAGTATCCCCTCGGAGGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
2366210 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
* *
2366238 CGAGGTTAGAGTATCC
1 CGGGGTTGGAGTATCC
2366254 TTGATTGTGA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:2366382 original size:51 final size:53
Alignment explanation
Indices: 2366272--2366418 Score: 167
Period size: 51 Copynumber: 2.8 Consensus size: 53
2366262 GAAAAATTGG
* * * **
2366272 TATTTTTAGAAATAAAATCGGAGTTGGAGTATCCCCGATTA-AAGGAAAATTGG
1 TATTTTGA-AAATAAAATCGGGGTTGGAGTATCCCCGATTATGAGGAAAATTAA
* *
2366325 TGTTTTGAAAATAAAATCGGGGTTGGAGTTTCCCCGATTATGA-G-AAATTAA
1 TATTTTGAAAATAAAATCGGGGTTGGAGTATCCCCGATTATGAGGAAAATTAA
* *
2366376 TATTTTGGAAATAAAAGT-GGGGTTGGAGTATCCTCGATTATGA
1 TATTTTGAAAATAAAA-TCGGGGTTGGAGTATCCCCGATTATGA
2366419 ACAATTGAGA
Statistics
Matches: 81, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
51 42 0.52
52 32 0.40
53 7 0.09
ACGTcount: A:0.34, C:0.09, G:0.24, T:0.33
Consensus pattern (53 bp):
TATTTTGAAAATAAAATCGGGGTTGGAGTATCCCCGATTATGAGGAAAATTAA
Found at i:2368793 original size:79 final size:79
Alignment explanation
Indices: 2368662--2368880 Score: 273
Period size: 79 Copynumber: 2.8 Consensus size: 79
2368652 AAAACGGGGC
** * *
2368662 TGGAGTATCCCCAATTAT-GAAAAATCGGTGTTTTGAAAGTAAAATCGGGGTTAGAGTATCCT-C
1 TGGAGTATCCCTGATTATAG-AAAATTGGTGTTTTGAAAATAAAATC-GGGTTAGAGTATCCTCC
*
2368725 TCGAAAATAATAGGGT
64 TCGAAAATAACAGGGT
* *
2368741 TGGAGTATCCCTGATTATAGAAAATTGGTATTTTGAAACTAAAATCAGGGTTAGAGTAT-CTCCT
1 TGGAGTATCCCTGATTATAGAAAATTGGTGTTTTGAAAATAAAATC-GGGTTAGAGTATCCTCCT
* * *
2368805 TGGAAATAACGGGGT
65 CGAAAATAACAGGGT
* *
2368820 TGGAGTATCCCTGAATATAGAAAATTGGTGTTTTGAAAATAAAATCGGAGTTGGAGTATCC
1 TGGAGTATCCCTGATTATAGAAAATTGGTGTTTTGAAAATAAAATCGG-GTTAGAGTATCC
2368881 CCAATTGTGA
Statistics
Matches: 122, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
78 4 0.03
79 116 0.95
80 2 0.02
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.31
Consensus pattern (79 bp):
TGGAGTATCCCTGATTATAGAAAATTGGTGTTTTGAAAATAAAATCGGGTTAGAGTATCCTCCTC
GAAAATAACAGGGT
Found at i:2368881 original size:51 final size:51
Alignment explanation
Indices: 2368817--2368933 Score: 143
Period size: 51 Copynumber: 2.3 Consensus size: 51
2368807 GAAATAACGG
* *
2368817 GGTTGGAGTATCCCTGAATAT-AGAAAA-TTGGTGTTTT-GAAAATAAAATCG-
1 GGTTGGAGTATCCC-CAAT-TGAGAAAATTTGGTATTTTAG-AAATAAAATCGA
*
2368867 GAGTTGGAGTATCCCCAATTGTGAAAATTTGGTATTTTAGAAATAAAATCGA
1 G-GTTGGAGTATCCCCAATTGAGAAAATTTGGTATTTTAGAAATAAAATCGA
2368919 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
2368934 TCGGAAATAA
Statistics
Matches: 59, Mismatches: 3, Indels: 9
0.83 0.04 0.13
Matches are distributed among these distances:
49 1 0.02
50 9 0.15
51 47 0.80
52 2 0.03
ACGTcount: A:0.33, C:0.11, G:0.24, T:0.32
Consensus pattern (51 bp):
GGTTGGAGTATCCCCAATTGAGAAAATTTGGTATTTTAGAAATAAAATCGA
Found at i:2369118 original size:51 final size:51
Alignment explanation
Indices: 2369055--2369272 Score: 215
Period size: 51 Copynumber: 4.3 Consensus size: 51
2369045 AAATAACGGG
** * * *
2369055 GTTGGAGTATCCCCAATTGTGAAAAATTGGTGGTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCAATTAAGAAAAATTGATGTTTTAGAAATAAAATCGGA
* * * *
2369106 GTTGGAGTATCCCCAATTAAGAAAAATTGATGTTTTGGAGATGAAA-CCGA
1 GTTGGAGTATCCCCAATTAAGAAAAATTGATGTTTTAGAAATAAAATCGGA
** ** ** * *
2369156 GATTGGAGTATCCCCGGTTGCGGTAAATCGATGCTTTAGAAATAAAATCGGA
1 G-TTGGAGTATCCCCAATTAAGAAAAATTGATGTTTTAGAAATAAAATCGGA
* * * *
2369208 GTTGGAGTATCCCCGATTAAGAAAAATTAATGTTTTAGAAATGAAACCGG-
1 GTTGGAGTATCCCCAATTAAGAAAAATTGATGTTTTAGAAATAAAATCGGA
2369258 GATTGGAGTATCCCC
1 G-TTGGAGTATCCCC
2369273 GAGATGAAAA
Statistics
Matches: 135, Mismatches: 29, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
50 5 0.04
51 126 0.93
52 4 0.03
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.28
Consensus pattern (51 bp):
GTTGGAGTATCCCCAATTAAGAAAAATTGATGTTTTAGAAATAAAATCGGA
Found at i:2371600 original size:20 final size:19
Alignment explanation
Indices: 2371575--2371738 Score: 130
Period size: 20 Copynumber: 7.8 Consensus size: 19
2371565 AAAATGCCTG
*
2371575 AATGTATCGATACATTGTAA
1 AATGTATCGATACAATG-AA
*
2371595 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGA-A
* *
2371615 CATGTATCGATACAATGAGC
1 AATGTATCGATACAATGA-A
2371635 AATGTATCGATACAATGCAA
1 AATGTATCGATACAATG-AA
* *
2371655 AATGTATCAATACATCTAGGTAAACCCA
1 AATGTATCGATACA---A--T-GA---A
2371683 GAATGTATCGATACAATGAA
1 -AATGTATCGATACAATGAA
2371703 CAATGTATCGATACAATGAA
1 -AATGTATCGATACAATGAA
2371723 CAATGTATCGATACAA
1 -AATGTATCGATACAA
2371739 ATTGTGAAAA
Statistics
Matches: 122, Mismatches: 10, Indels: 24
0.78 0.06 0.15
Matches are distributed among these distances:
19 1 0.01
20 100 0.82
21 1 0.01
23 2 0.02
24 1 0.01
25 2 0.02
26 1 0.01
28 1 0.01
29 13 0.11
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.26
Consensus pattern (19 bp):
AATGTATCGATACAATGAA
Found at i:2375495 original size:13 final size:13
Alignment explanation
Indices: 2375477--2375503 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2375467 ACATTATGCT
2375477 TTGTATCGATACA
1 TTGTATCGATACA
2375490 TTGTATCGATACA
1 TTGTATCGATACA
2375503 T
1 T
2375504 GTCATTGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2375511 original size:18 final size:18
Alignment explanation
Indices: 2375488--2375542 Score: 83
Period size: 18 Copynumber: 2.9 Consensus size: 18
2375478 TGTATCGATA
2375488 CATTGTATCGATACATGT
1 CATTGTATCGATACATGT
*
2375506 CATTGTATCGATACATACT
1 CATTGTATCGATACAT-GT
2375525 CAATTGTATCGATACATG
1 C-ATTGTATCGATACATG
2375543 AAACTGGCAG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
18 16 0.48
19 2 0.06
20 15 0.45
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (18 bp):
CATTGTATCGATACATGT
Found at i:2375605 original size:13 final size:13
Alignment explanation
Indices: 2375587--2375613 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2375577 GATACATGGG
2375587 ACATTGTATCGAT
1 ACATTGTATCGAT
2375600 ACATTGTATCGAT
1 ACATTGTATCGAT
2375613 A
1 A
2375614 TATGAAGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (13 bp):
ACATTGTATCGAT
Found at i:2387728 original size:15 final size:17
Alignment explanation
Indices: 2387708--2387744 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
2387698 ATGAATGACT
2387708 TTTATGGC-TT-ATGAA
1 TTTATGGCTTTCATGAA
2387723 TTTAT-GCTTTCATGAA
1 TTTATGGCTTTCATGAA
2387739 TTTATG
1 TTTATG
2387745 CTCTTACATG
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 2 0.11
15 7 0.37
16 10 0.53
ACGTcount: A:0.24, C:0.08, G:0.16, T:0.51
Consensus pattern (17 bp):
TTTATGGCTTTCATGAA
Found at i:2391880 original size:19 final size:18
Alignment explanation
Indices: 2391852--2391887 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
2391842 AAACTGGTAG
2391852 GAAAAAAAGCTTTTCTTA
1 GAAAAAAAGCTTTTCTTA
2391870 GAAACAAAAGCTTTTCTT
1 GAAA-AAAAGCTTTTCTT
2391888 GAAGGAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.42, C:0.14, G:0.11, T:0.33
Consensus pattern (18 bp):
GAAAAAAAGCTTTTCTTA
Found at i:2392780 original size:471 final size:469
Alignment explanation
Indices: 2391972--2392845 Score: 1014
Period size: 471 Copynumber: 1.9 Consensus size: 469
2391962 GAAGAACATT
* * *
2391972 TTTTTGTTGCCGAATGATGAAAAGAATAGAGATTATTATGTCAATCCATATTTGTCTTATTTAAG
1 TTTTTGTTGCCAAATCATGAAAAGAATAGAGATTATTATGTCAATACATATTTGTCTTATTTAAG
** * * **
2392037 AGATGAACTTTGATTCTAAAGACAATGGTGAAAAGAAAAGCTTTCTTGTGAAACCAAAGCATCAA
66 AGACAAACTTTGATTCTAAAGAAAATGGTGAAAAGAAAAACTTTCTTACGAAACCAAAGCATCAA
** * * *
2392102 TATTGTGTATCCCAATGAAGAAAATATGTTTATAGTACCTAATTATGAAAAGATGGAGATTATTA
131 TATCATGTATCCCAATGAAGAAAATATGTTTATAGTACCCAATCATGAAAAGATGAAGATTATTA
** * *
2392167 TGAGAATCTATGTTTCTCTCAATTAATGTATAAATTTGATTATAAAGAAAATGGTGGAAAGAACT
196 TGAGAATCTATGTTTCTCTCAACGAATG--TAAATTTAATTACAAAGAAAATGGTGGAAAGAACT
* * * ** * * *
2392232 TTTCCTGCAAAACTAAAGCATTAATATTGTGTTTCTTAATAAGGAAAACAAGTGTATATTGCCTA
259 TTTCCTACAAAACCAAAGCATCAATATCATGTTTCCTAATAAGGAAAACAAGTGTATAGTGCCCA
* *
2392297 ATATTAAAAAGAATAG-AGATTATTACAAGAATCCATACTTGT-TTCATTTGATGGATGAA-TTA
324 ATAATAAAAAGAAT-GTAGATTATTACAAGAATCCATACTTGTCTT-ATTTAATGGATGAACTT-
*
2392359 TAATTTTGAGGAAAATGGAGGAAAGAAAAGCTTTTCTTACAAAGCCAAAGGATTAATATCGGGTT
386 TAA-TTTAAGGAAAATGGAGGAAAGAAAAGCTTTTCTTACAAAGCCAAAGGATTAATATCGGGTT
2392424 ATTCTAGTGAGTAGAATGTG
450 ATTCTAGTGAGTAGAATGTG
* * * *
2392444 TTTTTGTTGCCAAATCATGAAGAGAATGGAGATTATTATGTCAATACATGTTTGTCTTATTTGAG
1 TTTTTGTTGCCAAATCATGAAAAGAATAGAGATTATTATGTCAATACATATTTGTCTTATTTAAG
* * *
2392509 AGACAAACTTTGATTCTAAGGAAAATTGTG-GAAGAAAAACTTTCTTACGAAACCAAAGCATCAA
66 AGACAAACTTTGATTCTAAAGAAAATGGTGAAAAGAAAAACTTTCTTACGAAACCAAAGCATCAA
* * * * * * *
2392573 TATCATGTATCCTAATGAAGAAAATGTGTTTATGGTGCCCAATCATGAAATGAGTGAATATTTTT
131 TATCATGTATCCCAATGAAGAAAATATGTTTATAGTACCCAATCATGAAAAGA-TGAAGATTATT
* * * * *
2392638 ATGAGTATTTATGTTAT-T-TCAACGAATG-AACTTTAATTCCAAGGAAAATGGT-GACAAGAAA
195 ATGAGAATCTATGTT-TCTCTCAACGAATGTAAATTTAATTACAAAGAAAATGGTGGA-AAG--A
* * ** *
2392699 AGTTTTTCCTACAAAACCAAAGCATCAATATCATGTTTCCTAATGAA-GAGAATGAGT-TATGGG
256 A-CTTTTCCTACAAAACCAAAGCATCAATATCATGTTTCCTAAT-AAGGAAAACAAGTGTAT-AG
*** **
2392762 TGCCCAATTAAT-AAAAGAATGTAGATTATTATGGGAATCCATGGTTGTCTTATTTAATGGATGA
318 TGCCCAA-TAATAAAAAGAATGTAGATTATTACAAGAATCCATACTTGTCTTATTTAATGGATGA
2392826 ACTTTAATTTAAGGAAAATG
382 ACTTTAATTTAAGGAAAATG
2392846 ATGGAAAAAG
Statistics
Matches: 332, Mismatches: 58, Indels: 26
0.80 0.14 0.06
Matches are distributed among these distances:
467 2 0.01
468 22 0.07
470 18 0.05
471 175 0.53
472 114 0.34
473 1 0.00
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.34
Consensus pattern (469 bp):
TTTTTGTTGCCAAATCATGAAAAGAATAGAGATTATTATGTCAATACATATTTGTCTTATTTAAG
AGACAAACTTTGATTCTAAAGAAAATGGTGAAAAGAAAAACTTTCTTACGAAACCAAAGCATCAA
TATCATGTATCCCAATGAAGAAAATATGTTTATAGTACCCAATCATGAAAAGATGAAGATTATTA
TGAGAATCTATGTTTCTCTCAACGAATGTAAATTTAATTACAAAGAAAATGGTGGAAAGAACTTT
TCCTACAAAACCAAAGCATCAATATCATGTTTCCTAATAAGGAAAACAAGTGTATAGTGCCCAAT
AATAAAAAGAATGTAGATTATTACAAGAATCCATACTTGTCTTATTTAATGGATGAACTTTAATT
TAAGGAAAATGGAGGAAAGAAAAGCTTTTCTTACAAAGCCAAAGGATTAATATCGGGTTATTCTA
GTGAGTAGAATGTG
Found at i:2392853 original size:154 final size:152
Alignment explanation
Indices: 2392514--2392932 Score: 399
Period size: 154 Copynumber: 2.7 Consensus size: 152
2392504 TTGAGAGACA
* *
2392514 AACTTTGATTCTAAGGAAAATTG-TGGAAGAAAAA-C-TTTCTTACGAAACCAAAGCATCAATAT
1 AACTTTAATTCCAAGGAAAA-TGAT-G-AGAAAAAGCATTTCTTACGAAACCAAAGCATCAATAT
* * * * * * * *
2392576 CATGTATCCTAATGAAGAAAATGTGTTTATGGTGCCCAA-TCATGAAATGAGTGAATATTTTTAT
63 CATGTTTCCTAATGAAGAGAATGAGTTTATGGTGCCCAATTAAT-AAAAGAATGAAGATTATTAT
* *
2392640 GAGTATTTATGTTATTTCAACGAATG
127 GAATATTTATCTTATTTCAACGAATG
* * ** * *
2392666 AACTTTAATTCCAAGGAAAATGGTGACAAGAAAAGTTTTTCCTACAAAACCAAAGCATCAATATC
1 AACTTTAATTCCAAGGAAAATGATGA-GA-AAAAGCATTTCTTACGAAACCAAAGCATCAATATC
*
2392731 ATGTTTCCTAATGAAGAGAATGAG-TTATGGGTGCCCAATTAATAAAAGAATGTAGATTATTATG
64 ATGTTTCCTAATGAAGAGAATGAGTTTAT-GGTGCCCAATTAATAAAAGAATGAAGATTATTAT-
* * *
2392795 GGAATCCATGGTTGTCTTATTT-AATGGATG
127 -GAAT--AT--TTATCTTATTTCAACGAATG
* ** **
2392825 AACTTTAATT-TAAGGAAAATGATG-GAAAAAGCATTTCTTGTGAAAGTAAAGCATCAATATCAT
1 AACTTTAATTCCAAGGAAAATGATGAGAAAAAGCATTTCTTACGAAACCAAAGCATCAATATCAT
*
2392888 GTTTCCTAATGAAGAGAATGGGTTTAT-GTGCCCAATTAA-AAAAGA
66 GTTTCCTAATGAAGAGAATGAGTTTATGGTGCCCAATTAATAAAAGA
2392933 CTATAGATGT
Statistics
Matches: 221, Mismatches: 32, Indels: 27
0.79 0.11 0.10
Matches are distributed among these distances:
150 1 0.00
151 4 0.02
152 23 0.10
153 10 0.05
154 83 0.38
155 53 0.24
156 8 0.04
158 14 0.06
159 16 0.07
160 9 0.04
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.32
Consensus pattern (152 bp):
AACTTTAATTCCAAGGAAAATGATGAGAAAAAGCATTTCTTACGAAACCAAAGCATCAATATCAT
GTTTCCTAATGAAGAGAATGAGTTTATGGTGCCCAATTAATAAAAGAATGAAGATTATTATGAAT
ATTTATCTTATTTCAACGAATG
Found at i:2395562 original size:20 final size:20
Alignment explanation
Indices: 2395511--2395584 Score: 76
Period size: 21 Copynumber: 3.6 Consensus size: 20
2395501 TTCTACAATT
*
2395511 TGTATCGATACAAACAGTAAA
1 TGTATCGATACATA-AGTAAA
* *
2395532 TGTACCAATACATAAGTAAA
1 TGTATCGATACATAAGTAAA
***
2395552 TGTATCGATACATGCCTAAAA
1 TGTATCGATACATAAGT-AAA
2395573 TGTATCGATACA
1 TGTATCGATACA
2395585 AAACCACCCT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 18 0.41
21 26 0.59
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.27
Consensus pattern (20 bp):
TGTATCGATACATAAGTAAA
Found at i:2395659 original size:22 final size:19
Alignment explanation
Indices: 2395632--2395687 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 19
2395622 CATTAGTAAA
2395632 TGTATCGATACATGCTTACAAT
1 TGTATCGATACAT--TT-CAAT
* *
2395654 TGTATCAATACATTTCTAT
1 TGTATCGATACATTTCAAT
2395673 TGTATCGATACATTT
1 TGTATCGATACATTT
2395688 TGGGTTTTTG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 17 0.55
20 2 0.06
22 12 0.39
ACGTcount: A:0.30, C:0.16, G:0.11, T:0.43
Consensus pattern (19 bp):
TGTATCGATACATTTCAAT
Found at i:2399900 original size:21 final size:20
Alignment explanation
Indices: 2399874--2399917 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
2399864 GGTTACATTA
*
2399874 ATTCATTTTATTTTGATTATT
1 ATTCATTTAATTTTGATT-TT
*
2399895 ATTCATTTAATTTTTATTTT
1 ATTCATTTAATTTTGATTTT
2399915 ATT
1 ATT
2399918 TTATTGAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.25, C:0.05, G:0.02, T:0.68
Consensus pattern (20 bp):
ATTCATTTAATTTTGATTTT
Found at i:2405774 original size:153 final size:149
Alignment explanation
Indices: 2405544--2406028 Score: 530
Period size: 154 Copynumber: 3.2 Consensus size: 149
2405534 TTTACTGAAT
* * *
2405544 TTTAAAAATTATAAACTTAGAAAAATCTAACAAAAAAATTTATGAAGTAAAAA-ATTTCATATTT
1 TTTAAAAATTATAAACTTAGAAAAATCT-ACAAAAAAATTTAAGAAGTAAAAACA-CT-ATATCT
* * * * *
2405608 TGAG-AGCAGGAAAAATTTTAAAACTCATTAAATAAATT-AGTTTGTTCAAAACTAATTTAATAT
63 T-AGTAACAAGAAAAATTCTAAAACTCATAAAATAAATTAAATTT-TTCAAAACTAA-TTAATAT
*
2405671 AAATTAAACAATAATATTTGAAGAA
125 GAATTAAACAATAATATTTGAAGAA
* * *
2405696 TTTGAAAATTATAAACTTAGAAAAATCTTAGCAAAAAAATTTACGGAGTAGAAAACACTATATCT
1 TTTAAAAATTATAAACTTAGAAAAATC-TA-CAAAAAAATTTAAGAAGTA-AAAACACTATATCT
* * * *
2405761 TAGTAACAAGAAAAATTCTAAAATTTATAAAATAAATTGAATTTTTCAAAACTGATTAACTATGA
63 TAGTAACAAGAAAAATTCTAAAACTCATAAAATAAATTAAATTTTTCAAAACTAATTAA-TATGA
*
2405826 ATTAAACAATAATCTTTGAAGAA
127 ATTAAACAATAATATTTGAAGAA
* * * * *
2405849 TTGTAAAAATTATAAACTTAAAAAAATCCTACTAGAGAAATTTAA-ACAGTAAAAAACTCTGTAT
1 TT-TAAAAATTATAAACTTAGAAAAAT-CTAC-AAAAAAATTTAAGA-AGT-AAAAACACTATAT
** * *
2405913 CTCGGTAACAAGGAAAATTCTAAAACTCATAAAATAAATTAAAATTTTCAAAACTAATTAATATG
61 CTTAGTAACAAGAAAAATTCTAAAACTCATAAAATAAATTAAATTTTTCAAAACTAATTAATATG
* *
2405978 AATTAAA-AATAGTATTTGAAAAA
126 AATTAAACAATAATATTTGAAGAA
*
2406001 TTTTATAAATTATAAACTTAGAAAAATC
1 -TTTAAAAATTATAAACTTAGAAAAATC
2406029 CAACTAGAGA
Statistics
Matches: 284, Mismatches: 36, Indels: 27
0.82 0.10 0.08
Matches are distributed among these distances:
151 1 0.00
152 68 0.24
153 104 0.37
154 108 0.38
155 3 0.01
ACGTcount: A:0.52, C:0.08, G:0.08, T:0.32
Consensus pattern (149 bp):
TTTAAAAATTATAAACTTAGAAAAATCTACAAAAAAATTTAAGAAGTAAAAACACTATATCTTAG
TAACAAGAAAAATTCTAAAACTCATAAAATAAATTAAATTTTTCAAAACTAATTAATATGAATTA
AACAATAATATTTGAAGAA
Found at i:2406107 original size:21 final size:21
Alignment explanation
Indices: 2406083--2406123 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
2406073 TAAAAAAATC
* *
2406083 TAAAAGAAAATGCAAAATTTA
1 TAAAAGAAAAAGAAAAATTTA
*
2406104 TAAAATAAAAAGAAAAATTT
1 TAAAAGAAAAAGAAAAATTT
2406124 GAAACTAATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.66, C:0.02, G:0.07, T:0.24
Consensus pattern (21 bp):
TAAAAGAAAAAGAAAAATTTA
Found at i:2406109 original size:152 final size:153
Alignment explanation
Indices: 2405652--2406093 Score: 369
Period size: 154 Copynumber: 2.9 Consensus size: 153
2405642 AATTAGTTTG
* * *
2405652 TTCAAAACTAATTTAA-TATAAATTAAACAATAATATTTGAAGAATT-TGAAAATTATAAACTTA
1 TTCAAAACTAA-TTAACTATGAATTAAACAATAATATTTGAAAAATTGTAAAAATTATAAACTTA
* * * * * *** * * * * * *
2405715 GAAAAATCTTAGC-AAAAAAATTTACGGAGTAGAAAACACTATATCT-TAGTAACAAGAAAAATT
65 AAAAAATC-CAACTAGAGAAATTTAAACAGCAAAAAACTCTGTATCTCGA-AAACAAGAAAAA-T
*** * *
2405778 CTAAAATTTATAAAATAAATTGAATTT
127 CTAAAAAAAATAAAATAAATTAAAATT
* * *
2405805 TTCAAAACTGATTAACTATGAATTAAACAATAATCTTTGAAGAATTGTAAAAATTATAAACTTAA
1 TTCAAAACTAATTAACTATGAATTAAACAATAATATTTGAAAAATTGTAAAAATTATAAACTTAA
* * ** *
2405870 AAAAATCCTACTAGAGAAATTTAAACAGTAAAAAACTCTGTATCTCGGTAACAAGGAAAATTCTA
66 AAAAATCCAACTAGAGAAATTTAAACAGCAAAAAACTCTGTATCTCGAAAACAA-GAAAAATCTA
***
2405935 AAACTCATAAAATAAATTAAAATT
130 AAAAAAATAAAATAAATTAAAATT
* * * *
2405959 TTCAAAACTAATTAA-TATGAATTAAA-AATAGTATTTGAAAAATTTTATAAATTATAAACTTAG
1 TTCAAAACTAATTAACTATGAATTAAACAATAATATTTGAAAAATTGTAAAAATTATAAACTTAA
* ** * * * *
2406022 AAAAATCCAACTAGAGAAATTTATAGGGCAGAAAACT-TCGTATTTTGAAAATAA-AAAAATCTA
66 AAAAATCCAACTAGAGAAATTTAAACAGCAAAAAACTCT-GTATCTCGAAAACAAGAAAAATCTA
2406085 AAAGAAAAT
130 AAA-AAAAT
2406094 GCAAAATTTA
Statistics
Matches: 237, Mismatches: 45, Indels: 16
0.80 0.15 0.05
Matches are distributed among these distances:
150 11 0.05
151 3 0.01
152 76 0.32
153 50 0.21
154 92 0.39
155 5 0.02
ACGTcount: A:0.52, C:0.09, G:0.09, T:0.31
Consensus pattern (153 bp):
TTCAAAACTAATTAACTATGAATTAAACAATAATATTTGAAAAATTGTAAAAATTATAAACTTAA
AAAAATCCAACTAGAGAAATTTAAACAGCAAAAAACTCTGTATCTCGAAAACAAGAAAAATCTAA
AAAAAATAAAATAAATTAAAATT
Found at i:2407171 original size:43 final size:43
Alignment explanation
Indices: 2407123--2407899 Score: 378
Period size: 43 Copynumber: 18.3 Consensus size: 43
2407113 GCTAGCCAAT
*
2407123 ATGAAACCATACGCACCAATAAGTTAGAAGAGTGTTGGTTGGG
1 ATGAAACCATACGTACCAATAAGTTAGAAGAGTGTTGGTTGGG
** * * * * * *
2407166 ATGAAACCATGTGTACCAATGAGGTATAA-ATGAGTTAGTCGGG
1 ATGAAACCATACGTACCAATAAGTTAGAAGA-GTGTTGGTTGGG
* * * ***
2407209 AT-AAGACCATATGGACCAATAAGTTAGAA-AGATGTTAGCAAGG
1 ATGAA-ACCATACGTACCAATAAGTTAGAAGAG-TGTTGGTTGGG
* * *
2407252 ATGATACCAT--G-----GTAAGTTAGAAGAGTATTGGTTGGG
1 ATGAAACCATACGTACCAATAAGTTAGAAGAGTGTTGGTTGGG
* * * * * * * *
2407288 ATGAAACCATACCTACTAACAAATTAGAAAAATGTTGGTCGAG
1 ATGAAACCATACGTACCAATAAGTTAGAAGAGTGTTGGTTGGG
* * * * * **
2407331 ACGGAACCATACGTACTAATAAGTTAGAAAAGTGTTGGCTAAG
1 ATGAAACCATACGTACCAATAAGTTAGAAGAGTGTTGGTTGGG
* * * ** * * * *
2407374 ACGAAACCATATGTACTAACGAGTTAAAAGGGTGTTGGTCGAG
1 ATGAAACCATACGTACCAATAAGTTAGAAGAGTGTTGGTTGGG
** * * * * * ** *
2407417 ACAAAACCATATGTAGCAATGAGTTAAAAGGGCATTGGTCGGG
1 ATGAAACCATACGTACCAATAAGTTAGAAGAGTGTTGGTTGGG
* * * * ** **
2407460 ACGAAACCATACGTACCAACAAGTTAGAGGGGCATTGGCCGGG
1 ATGAAACCATACGTACCAATAAGTTAGAAGAGTGTTGGTTGGG
** * *
2407503 ACAAAACCATACGTACC-ATCGAGTTAGAAGAGTGTTGGTTAGG
1 ATGAAACCATACGTACCAAT-AAGTTAGAAGAGTGTTGGTTGGG
* * * * * * * *
2407546 ATGAAAGCATACATACCAATGACTTGGAAAAGTGTTGGCTAGG
1 ATGAAACCATACGTACCAATAAGTTAGAAGAGTGTTGGTTGGG
* ** * **
2407589 ATGAAACCATACATACCAACCAGTTA-AAGGGATGTTGGCCGGG
1 ATGAAACCATACGTACCAATAAGTTAGAAGAG-TGTTGGTTGGG
* * *
2407632 ATGAAACCATACGTACCAATGAGTTAGAAGAGTATTGATTGGG
1 ATGAAACCATACGTACCAATAAGTTAGAAGAGTGTTGGTTGGG
* * * * * *
2407675 ACGAAGCCATATGTACCAACAAGTTAAAAGAGTGTTGGTTAGG
1 ATGAAACCATACGTACCAATAAGTTAGAAGAGTGTTGGTTGGG
* * * * * *
2407718 ATGAAACCATATGTACTAACAAGTTAG-CGAGGTGTTGGCTAGG
1 ATGAAACCATACGTACCAATAAGTTAGAAGA-GTGTTGGTTGGG
** * *** * *
2407761 ACAAAAACATATACACCAACAAGTTAGAAGAGTGTTGGTCGGG
1 ATGAAACCATACGTACCAATAAGTTAGAAGAGTGTTGGTTGGG
* * * * * * * *
2407804 ACGAAATCAAACATACTAGTAAGTTAGAAGAGTGTTGGCTAGG
1 ATGAAACCATACGTACCAATAAGTTAGAAGAGTGTTGGTTGGG
* * * *
2407847 ATGAAACCATATGTACTAATAAGTTAGAAGA--GTTGATCGGG
1 ATGAAACCATACGTACCAATAAGTTAGAAGAGTGTTGGTTGGG
2407888 ATGAAACCATAC
1 ATGAAACCATAC
2407900 AAGTCAACGA
Statistics
Matches: 565, Mismatches: 151, Indels: 38
0.75 0.20 0.05
Matches are distributed among these distances:
36 25 0.04
37 2 0.00
41 18 0.03
42 10 0.02
43 501 0.89
44 9 0.02
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.23
Consensus pattern (43 bp):
ATGAAACCATACGTACCAATAAGTTAGAAGAGTGTTGGTTGGG
Found at i:2407999 original size:82 final size:83
Alignment explanation
Indices: 2407824--2408003 Score: 211
Period size: 82 Copynumber: 2.2 Consensus size: 83
2407814 ACATACTAGT
* * * * * * *
2407824 AAGTTAGAAGAGTGTTGGCTAGGATGAAACCATATGTACTAATAAGTTAGAAGAGTTGATCGGGA
1 AAGTTAGAAGA--GTTGGCTAGGAAGAAACCATACGAACCAACAAGTTAGAAAAGTTGATAGGGA
**
2407889 TGAAACCATACAAGTCAACG
64 CAAAACCATACAAGTCAACG
* *
2407909 AAG-GAGAAGAGTTGGCTAGGAAGAGACCATACGAACCAACAAGTTAGAAAAGTTGATAGGGACA
1 AAGTTAGAAGAGTTGGCTAGGAAGAAACCATACGAACCAACAAGTTAGAAAAGTTGATAGGGACA
* *
2407973 AAACCATACGAGTCAATG
66 AAACCATACAAGTCAACG
2407991 -AGTTAGAAGAGTT
1 AAGTTAGAAGAGTT
2408004 AACCAAAACG
Statistics
Matches: 80, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
81 2 0.03
82 69 0.86
84 6 0.08
85 3 0.04
ACGTcount: A:0.41, C:0.12, G:0.27, T:0.20
Consensus pattern (83 bp):
AAGTTAGAAGAGTTGGCTAGGAAGAAACCATACGAACCAACAAGTTAGAAAAGTTGATAGGGACA
AAACCATACAAGTCAACG
Found at i:2408045 original size:82 final size:82
Alignment explanation
Indices: 2407968--2408126 Score: 183
Period size: 82 Copynumber: 1.9 Consensus size: 82
2407958 AAGTTGATAG
* ** ** * *
2407968 GGACAAAACCATACGAGTCAATGAGTTAGAAGAGTTAACCAAAACGAAACCATACAAGTCAACGA
1 GGACAAAACCATAAGAACCAACAAGTTAAAAAAGTTAACCAAAACGAAACCATACAAGTCAACGA
* *
2408033 AGGAAAACAGTTGGCCA
66 AGGAAAAAAGTTGGACA
* * * * **
2408050 TGACAAAACCATAAGAACCAACAAGTTAAAAAAGTTAACCGAGATGAAACCATAGGAGTCAACGA
1 GGACAAAACCATAAGAACCAACAAGTTAAAAAAGTTAACCAAAACGAAACCATACAAGTCAACGA
2408115 AGGAAAAAAGTT
66 AGGAAAAAAGTT
2408127 ATCCTAGACG
Statistics
Matches: 63, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
82 63 1.00
ACGTcount: A:0.49, C:0.18, G:0.19, T:0.14
Consensus pattern (82 bp):
GGACAAAACCATAAGAACCAACAAGTTAAAAAAGTTAACCAAAACGAAACCATACAAGTCAACGA
AGGAAAAAAGTTGGACA
Found at i:2408100 original size:41 final size:41
Alignment explanation
Indices: 2408055--2408160 Score: 108
Period size: 41 Copynumber: 2.6 Consensus size: 41
2408045 GGCCATGACA
*
2408055 AAACCATAAGAACCAACAAGTTAAAAAAGTTAACCGAGATG
1 AAACCATAAGAACCAACAAGTTAAAAAAGTTAACCGAGACG
* ** * * *
2408096 AAACCATAGGAGTCAACGAAG-GAAAAAAGTTATCCTAGACG
1 AAACCATAAGAACCAAC-AAGTTAAAAAAGTTAACCGAGACG
*
2408137 AAGCCATACA-AACCAACAAGTTAA
1 AAACCATA-AGAACCAACAAGTTAA
2408161 CCTGGACGAA
Statistics
Matches: 50, Mismatches: 12, Indels: 6
0.74 0.18 0.09
Matches are distributed among these distances:
40 3 0.06
41 44 0.88
42 3 0.06
ACGTcount: A:0.51, C:0.19, G:0.16, T:0.14
Consensus pattern (41 bp):
AAACCATAAGAACCAACAAGTTAAAAAAGTTAACCGAGACG
Found at i:2408100 original size:123 final size:123
Alignment explanation
Indices: 2407890--2408111 Score: 302
Period size: 123 Copynumber: 1.8 Consensus size: 123
2407880 TGATCGGGAT
* * * * *
2407890 GAAACCATACAAGTCAACGAAGGAGAAGAGTTGGCTAGGAAGAGACCATACGAACCAACAAGTTA
1 GAAACCATACAAGTCAACGAAGGAAAACAGTTGGCCAGGAAGAAACCATAAGAACCAACAAGTTA
* * * *
2407955 GAAAAGTTGATAGGGACAAAACCATACGAGTCAATGAGTTAGAAGAGTTAACCAAAAC
66 AAAAAGTTAACAGAGACAAAACCATACGAGTCAATGAGTTAGAAGAGTTAACCAAAAC
*
2408013 GAAACCATACAAGTCAACGAAGGAAAACAGTTGGCCATGACA-AAACCATAAGAACCAACAAGTT
1 GAAACCATACAAGTCAACGAAGGAAAACAGTTGGCCAGGA-AGAAACCATAAGAACCAACAAGTT
* ** *
2408077 AAAAAAGTTAACCGAGATGAAACCATAGGAGTCAA
65 AAAAAAGTTAACAGAGACAAAACCATACGAGTCAA
2408112 CGAAGGAAAA
Statistics
Matches: 84, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
123 83 0.99
124 1 0.01
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (123 bp):
GAAACCATACAAGTCAACGAAGGAAAACAGTTGGCCAGGAAGAAACCATAAGAACCAACAAGTTA
AAAAAGTTAACAGAGACAAAACCATACGAGTCAATGAGTTAGAAGAGTTAACCAAAAC
Found at i:2408127 original size:123 final size:123
Alignment explanation
Indices: 2407890--2408147 Score: 286
Period size: 123 Copynumber: 2.1 Consensus size: 123
2407880 TGATCGGGAT
* * * * *
2407890 GAAACCATACAAGTCAACGAAGGAGAAGAGTTGGCTAGGAAGAGACCATACGAACCAACAAGTTA
1 GAAACCATACAAGTCAACGAAGGAAAACAGTTGGCCAGGAAGAAACCATAAGAACCAACAAGTTA
* * * * * * * *
2407955 GAAAAGTTGATAGGGACAAAACCATACGAGTCAATGAGTTAGAAGAGTTAACCAAAAC
66 AAAAAGTTAACAGAGACAAAACCATACGAGTCAACGAGTGAAAAAAGTTAACCAAAAC
*
2408013 GAAACCATACAAGTCAACGAAGGAAAACAGTTGGCCATGACA-AAACCATAAGAACCAACAAGTT
1 GAAACCATACAAGTCAACGAAGGAAAACAGTTGGCCAGGA-AGAAACCATAAGAACCAACAAGTT
* ** * * * *
2408077 AAAAAAGTTAACCGAGATGAAACCATAGGAGTCAACGAAG-GAAAAAAGTTATCCTAGAC
65 AAAAAAGTTAACAGAGACAAAACCATACGAGTCAACG-AGTGAAAAAAGTTAACCAAAAC
*
2408136 GAAGCCATACAA
1 GAAACCATACAA
2408148 ACCAACAAGT
Statistics
Matches: 111, Mismatches: 22, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
123 108 0.97
124 3 0.03
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (123 bp):
GAAACCATACAAGTCAACGAAGGAAAACAGTTGGCCAGGAAGAAACCATAAGAACCAACAAGTTA
AAAAAGTTAACAGAGACAAAACCATACGAGTCAACGAGTGAAAAAAGTTAACCAAAAC
Found at i:2408359 original size:43 final size:43
Alignment explanation
Indices: 2408223--2408859 Score: 273
Period size: 43 Copynumber: 14.9 Consensus size: 43
2408213 GACTATACGA
* * * * * **
2408223 ACCAACAAGTTAAAAGGGTGTTGGCTAGGATGAAATCATATGT
1 ACCAACAAGTTAGAAGAGTCTTGGCCAGGATGAAACCATACAT
* * * * * * * *
2408266 ACTAACGA-TTAAGAAAAGTGTTGGTCGGGATAAAACCATACGT
1 ACCAACAAGTT-AGAAGAGTCTTGGCCAGGATGAAACCATACAT
* *
2408309 ACCAACAAGTTAGAAGAGTCTCGGCCAGGACGAAACCATACAT
1 ACCAACAAGTTAGAAGAGTCTTGGCCAGGATGAAACCATACAT
* * * * ** *
2408352 ACCAACAAGTTAAAAAAGTGTTGGTCAAAATGAAACCATACGT
1 ACCAACAAGTTAGAAGAGTCTTGGCCAGGATGAAACCATACAT
* * * * * **
2408395 ATCAACGAGTTAGAAGGGTATTGACC-GAGACAAAACCATACAT
1 ACCAACAAGTTAGAAGAGTCTTGGCCAG-GATGAAACCATACAT
* **
2408438 ACCAATAAGTTAGAAG-G-CGTTGGCCTA-GATGAAACCATATGT
1 ACCAACAAGTTAGAAGAGTC-TTGGCC-AGGATGAAACCATACAT
* * * * * **
2408480 ACCAACGAGTTAGAGGAG-CGTTTGCCAAGACGAAACCATATGT
1 ACCAACAAGTTAGAAGAGTC-TTGGCCAGGATGAAACCATACAT
** * * * *
2408523 ACCAATGAGTTAGAAGAGTGTTGGTCGGGATAAAACCATACAT
1 ACCAACAAGTTAGAAGAGTCTTGGCCAGGATGAAACCATACAT
* * * * * **
2408566 ACCAACGAGTTAAAAGAATGTT--CACTGAGATGAAACCATATGT
1 ACCAACAAGTTAGAAGAGTCTTGGC-CAG-GATGAAACCATACAT
* * *
2408609 ACCAA-TAGTTAGATAG-G-CATTGGTCGGGATGAAACCATACAT
1 ACCAACAAGTTAGA-AGAGTC-TTGGCCAGGATGAAACCATACAT
* * ** **
2408651 ACCAACAAGTTCA-AAGAGTGTTAGCTGGGATGAAACCATATGT
1 ACCAACAAGTT-AGAAGAGTCTTGGCCAGGATGAAACCATACAT
* * * * * *
2408694 ACTAGCGAGTTAGAAGAATGC-TGGCCAGAATGAAACTATACAT
1 ACCAACAAGTTAGAAGAGT-CTTGGCCAGGATGAAACCATACAT
* * * *
2408737 ACTAA-AGAGTTAGAAAAGTGTTGGCCAAGATGAAACCATACAT
1 ACCAACA-AGTTAGAAGAGTCTTGGCCAGGATGAAACCATACAT
* * ** ** *
2408780 ACCAACTAA-TTA-AAGGGGTGTTGGCTGGGACCAAGCCATACAT
1 ACCAAC-AAGTTAGAA-GAGTCTTGGCCAGGATGAAACCATACAT
* * *
2408823 ACCAACAAGTTAG-TGAGGTATTGGCCAGGACGAAACC
1 ACCAACAAGTTAGAAGA-GTCTTGGCCAGGATGAAACC
2408860 TATAAAGCCA
Statistics
Matches: 438, Mismatches: 127, Indels: 58
0.70 0.20 0.09
Matches are distributed among these distances:
42 69 0.16
43 364 0.83
44 4 0.01
45 1 0.00
ACGTcount: A:0.39, C:0.17, G:0.23, T:0.21
Consensus pattern (43 bp):
ACCAACAAGTTAGAAGAGTCTTGGCCAGGATGAAACCATACAT
Found at i:2408533 original size:128 final size:128
Alignment explanation
Indices: 2408383--2408621 Score: 295
Period size: 128 Copynumber: 1.9 Consensus size: 128
2408373 TGGTCAAAAT
* * *
2408383 GAAACCATACGTATCAACGAGTTAGAAGGGTATTGACCGAGACAAAACCATACATACCAATAAGT
1 GAAACCATACGTACCAACGAGTTAGAAGAGTATTGACCGAGACAAAACCATACATACCAACAAGT
* *
2408448 TAGAAG-GCGTTGGC-CT-AGATGAAACCATATGTACCAACGAGTTAGAGGAGCGTTTGCCAAGA
66 TAAAAGAACGTT--CACTGAGATGAAACCATATGTACCAA-GAGTTAGAGGAGCGTTTGCCAAGA
2408510 C
128 C
* * * ** * * *
2408511 GAAACCATATGTACCAATGAGTTAGAAGAGTGTTGGTCGGGATAAAACCATACATACCAACGAGT
1 GAAACCATACGTACCAACGAGTTAGAAGAGTATTGACCGAGACAAAACCATACATACCAACAAGT
* *
2408576 TAAAAGAATGTTCACTGAGATGAAACCATATGTACCAATAGTTAGA
66 TAAAAGAACGTTCACTGAGATGAAACCATATGTACCAAGAGTTAGA
2408622 TAGGCATTGG
Statistics
Matches: 93, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
127 1 0.01
128 68 0.73
129 24 0.26
ACGTcount: A:0.39, C:0.18, G:0.22, T:0.21
Consensus pattern (128 bp):
GAAACCATACGTACCAACGAGTTAGAAGAGTATTGACCGAGACAAAACCATACATACCAACAAGT
TAAAAGAACGTTCACTGAGATGAAACCATATGTACCAAGAGTTAGAGGAGCGTTTGCCAAGAC
Found at i:2408652 original size:85 final size:84
Alignment explanation
Indices: 2408285--2408695 Score: 313
Period size: 85 Copynumber: 4.8 Consensus size: 84
2408275 TAAGAAAAGT
* * * * * **
2408285 GTTGGTCGGGATAAAACCATACGTACCAACAAGTTAGAAGAGTCTCGGCC-AGGACGAAACCATA
1 GTTGGTCGGGATGAAACCATACATACCAACGAGTTAAAAGAGTGT-TACCGA-GACGAAACCATA
** * * * *
2408349 CATACCAACAAGTTAAAAAAGT
64 TGTACCAATAAGTT-AGAAGGC
*** * * * * * * *
2408371 GTTGGTCAAAATGAAACCATACGTATCAACGAGTTAGAAGGGTATTGACCGAGACAAAACCATAC
1 GTTGGTCGGGATGAAACCATACATACCAACGAGTTAAAAGAGTGTT-ACCGAGACGAAACCATAT
*
2408436 ATACCAATAAGTTAGAAGGC
65 GTACCAATAAGTTAGAAGGC
* ** ** * * * * *
2408456 GTTGGCCTAGATGAAACCATATGTACCAACGAGTTAGAGGAGCGTTTGCCAAGACGAAACCATAT
1 GTTGGTCGGGATGAAACCATACATACCAACGAGTTAAAAGAGTG-TTACCGAGACGAAACCATAT
* *
2408521 GTACCAATGAGTTAGAAGAGT
65 GTACCAATAAGTTAGAAG-GC
* * * *
2408542 GTTGGTCGGGATAAAACCATACATACCAACGAGTTAAAAGAATGTTCACTGAGATGAAACCATAT
1 GTTGGTCGGGATGAAACCATACATACCAACGAGTTAAAAGAGTGTT-ACCGAGACGAAACCATAT
2408607 GTACCAAT-AGTTAGATAGGC
65 GTACCAATAAGTTAGA-AGGC
* * * * * *
2408627 ATTGGTCGGGATGAAACCATACATACCAACAAGTTCAAAGAGTGTTAGCTGGGATGAAACCATAT
1 GTTGGTCGGGATGAAACCATACATACCAACGAGTTAAAAGAGTGTTA-CCGAGACGAAACCATAT
2408692 GTAC
65 GTAC
2408696 TAGCGAGTTA
Statistics
Matches: 266, Mismatches: 52, Indels: 15
0.80 0.16 0.05
Matches are distributed among these distances:
84 1 0.00
85 140 0.53
86 124 0.47
87 1 0.00
ACGTcount: A:0.38, C:0.18, G:0.22, T:0.21
Consensus pattern (84 bp):
GTTGGTCGGGATGAAACCATACATACCAACGAGTTAAAAGAGTGTTACCGAGACGAAACCATATG
TACCAATAAGTTAGAAGGC
Found at i:2408688 original size:171 final size:171
Alignment explanation
Indices: 2408286--2408748 Score: 444
Period size: 171 Copynumber: 2.7 Consensus size: 171
2408276 AAGAAAAGTG
* * ** **
2408286 TTGGTCGGGATAAAACCATACGTACCAACAAGTTAGAAGAGTCTCGGCCAGGACGAAACCATACA
1 TTGGTCGGGATGAAACCATACGTACCAACAAGTTAGAAGAGTGTTAGCCAGGACGAAACCATATG
* * * * * * * **
2408351 TACCAACAAGTTAAAAAAGTGTTGGTCAAAATGAAACCATACGTATCAACGAGTTAGAAGGGTAT
66 TACCAACGAGTTAGAAGAGTGTTGGTCAAAATAAAACCATACATACCAACGAGTTAAAAGAATAT
* *
2408416 TGACCGAGACAAAACCATACATACCAATAAGTTAGAAGGCG
131 TCACCGAGACAAAACCATACATACCAATAAGTTAGAAGGCA
* ** * * * * * *
2408457 TTGGCCTAGATGAAACCATATGTACCAACGAGTTAGAGGAGCGTTTGCCAAGACGAAACCATATG
1 TTGGTCGGGATGAAACCATACGTACCAACAAGTTAGAAGAGTGTTAGCCAGGACGAAACCATATG
* *** *
2408522 TACCAATGAGTTAGAAGAGTGTTGGTCGGGATAAAACCATACATACCAACGAGTTAAAAGAATGT
66 TACCAACGAGTTAGAAGAGTGTTGGTCAAAATAAAACCATACATACCAACGAGTTAAAAGAATAT
* ** **
2408587 TCACTGAGATGAAACCATATGTACCAAT-AGTTAGATAGGCA
131 TCACCGAGACAAAACCATACATACCAATAAGTTAGA-AGGCA
* ** *
2408628 TTGGTCGGGATGAAACCATACATACCAACAAGTTCA-AAGAGTGTTAGCTGGGATGAAACCATAT
1 TTGGTCGGGATGAAACCATACGTACCAACAAGTT-AGAAGAGTGTTAGCCAGGACGAAACCATAT
* * * * * * * * * *
2408692 GTACTAGCGAGTTAGAAGAATGCTGGCCAGAATGAAACTATACATACTAAAGAGTTA
65 GTACCAACGAGTTAGAAGAGTGTTGGTCAAAATAAAACCATACATACCAACGAGTTA
2408749 GAAAAGTGTT
Statistics
Matches: 230, Mismatches: 60, Indels: 4
0.78 0.20 0.01
Matches are distributed among these distances:
170 7 0.03
171 222 0.97
172 1 0.00
ACGTcount: A:0.39, C:0.17, G:0.22, T:0.21
Consensus pattern (171 bp):
TTGGTCGGGATGAAACCATACGTACCAACAAGTTAGAAGAGTGTTAGCCAGGACGAAACCATATG
TACCAACGAGTTAGAAGAGTGTTGGTCAAAATAAAACCATACATACCAACGAGTTAAAAGAATAT
TCACCGAGACAAAACCATACATACCAATAAGTTAGAAGGCA
Found at i:2408888 original size:41 final size:41
Alignment explanation
Indices: 2408843--2408988 Score: 120
Period size: 41 Copynumber: 3.6 Consensus size: 41
2408833 TAGTGAGGTA
*
2408843 TTGGCCAGGACGAAACCT-ATAAAGCCAATAGATTTA-AAGGG
1 TTGGCCAGGACGAAA-CTAATAAAGCCAATA-AATTAGAAGGG
*
2408884 TTGGCCAGGGCGAAACTAATAAAGCCAATAAATTAGAAGGG
1 TTGGCCAGGACGAAACTAATAAAGCCAATAAATTAGAAGGG
* * * * * ** *
2408925 TTGACTATGG-CAAAACAAATAAAGTCAACCAATCT-TAAGGG
1 TTGGCCA-GGACGAAACTAATAAAGCCAATAAAT-TAGAAGGG
* *
2408966 TTGGCTAGGACGAAACCAATAAA
1 TTGGCCAGGACGAAACTAATAAA
2408989 ACTATCAAGT
Statistics
Matches: 87, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
40 8 0.09
41 76 0.87
42 3 0.03
ACGTcount: A:0.42, C:0.16, G:0.23, T:0.19
Consensus pattern (41 bp):
TTGGCCAGGACGAAACTAATAAAGCCAATAAATTAGAAGGG
Found at i:2408965 original size:82 final size:79
Alignment explanation
Indices: 2408874--2409130 Score: 205
Period size: 82 Copynumber: 3.1 Consensus size: 79
2408864 AAGCCAATAG
*
2408874 ATTTAAAGGGTTGGCCAGGGCGAAACTAATAAAGCCAATAAATTAGAAGGGTTGACTATGGCAAA
1 ATTT-AAGGGTTGGCCAGGGCGAAACTAATAAA-CCAATAAATTAGAAGGGTTGACCATGGCAAA
2408939 ACAAATAAAGTCAACCA
64 AC-AATAAAGTCAACCA
* * * * * * * * *
2408956 ATCTTAAGGGTTGGCTAGGACGAAACCAATAAAACTATCAAGTTAGAAGGCTTGACCAGGGTGAA
1 AT-TTAAGGGTTGGCCAGGGCGAAACTAATAAACCAAT-AAATTAGAAGGGTTGACCATGG-CAA
* *
2409021 ACCAATAAAGTCATCCA
63 AACAATAAAGTCAACCA
* * * * * *
2409038 A-TTAGTGGGGTTGGCCAAGGTGAAACCT-ATAAAACCAACAGATTTA-AAGGGTTTACCATGGC
1 ATTTA--AGGGTTGGCCAGGGCGAAA-CTAAT-AAACCAATA-AATTAGAAGGGTTGACCATGGC
* *
2409100 AAAACAATAAAATCAAGCA
61 AAAACAATAAAGTCAACCA
2409119 ATTATAAGGGTT
1 ATT-TAAGGGTT
2409131 AAGTAACATT
Statistics
Matches: 134, Mismatches: 31, Indels: 21
0.72 0.17 0.11
Matches are distributed among these distances:
80 3 0.02
81 24 0.18
82 89 0.66
83 18 0.13
ACGTcount: A:0.41, C:0.16, G:0.22, T:0.21
Consensus pattern (79 bp):
ATTTAAGGGTTGGCCAGGGCGAAACTAATAAACCAATAAATTAGAAGGGTTGACCATGGCAAAAC
AATAAAGTCAACCA
Found at i:2409760 original size:74 final size:74
Alignment explanation
Indices: 2409670--2409910 Score: 226
Period size: 74 Copynumber: 3.3 Consensus size: 74
2409660 TAGCTGAAAT
*
2409670 AAACTAACAACAAGTTGAAGGAAAGGAACATGA-GGGAATATATGGTTTCTAAAATTTTTATCAA
1 AAACTAACAACAAGTTGAAGGAAA-GAACATGAGGGGAATATATGGTTTCTAAAATTTCTATCAA
2409734 CAACCAAAAC
65 CAACCAAAAC
* * * *
2409744 AAACTGACAATAAGTTGAA--AAAGAAACATGATGGGGAATATGTGGTTTCCT-AAATTTCTATT
1 AAACTAACAACAAGTTGAAGGAAAG-AACATGA-GGGGAATATATGGTTT-CTAAAATTTCTATC
*
2409806 AACAGCC-AAAC
63 AACAACCAAAAC
* * * * * * *
2409817 AAATTGATAACGACTTGAAGAAGAAA-AACATAATGGGGAATATAT-GTTTCTATAATTTCTATC
1 AAACTAACAACAAGTTGAAG--GAAAGAACATGA-GGGGAATATATGGTTTCTAAAATTTCTATC
*
2409880 AACAACCATAAC
63 AACAACCAAAAC
* *
2409892 GAACTAACAACAAGCTGAA
1 AAACTAACAACAAGTTGAA
2409911 AAAAACATGA
Statistics
Matches: 133, Mismatches: 24, Indels: 19
0.76 0.14 0.11
Matches are distributed among these distances:
71 1 0.01
72 10 0.08
73 20 0.15
74 65 0.49
75 34 0.26
77 3 0.02
ACGTcount: A:0.46, C:0.14, G:0.16, T:0.24
Consensus pattern (74 bp):
AAACTAACAACAAGTTGAAGGAAAGAACATGAGGGGAATATATGGTTTCTAAAATTTCTATCAAC
AACCAAAAC
Found at i:2409984 original size:146 final size:146
Alignment explanation
Indices: 2409703--2410123 Score: 486
Period size: 146 Copynumber: 2.8 Consensus size: 146
2409693 AGGAACATGA
* * *
2409703 GGGAATATATGGTTTCTAAAATTTTTATCAACAACCAAAACAAACTGACAATAAGTTGAAAAAGA
1 GGGAATATAT-GTTTCTAAAATTTCTATCAACAACCAAAACAAACTGACAACAAGCTG-AAAA-A
* * * * * *
2409768 AACATGATGGGGAATATGTGGTTTCCTA-AATTT-CTATTAACAGCCAAACAAATTGATAACGAC
63 AACATGATGAGGAATATGTGG-AT-CTACAATTTCCTATCAATAGCCAAACAAACTAATAACGAC
*
2409831 TTGAAGAAGAAAAACATAATG
126 CTGAAGAAGAAAAACATAATG
* * * *
2409852 GGGAATATATGTTTCTATAATTTCTATCAACAACCATAACGAACTAACAACAAGCTGAAAAAAAC
1 GGGAATATATGTTTCTAAAATTTCTATCAACAACCAAAACAAACTGACAACAAGCTGAAAAAAAC
* * * * *
2409917 ATGATAAGGAATATTTGGATCTACAATTTCCCATCAATAGTCAAACAAACTAATAATGACCTGAA
66 ATGATGAGGAATATGTGGATCTACAATTTCCTATCAATAGCCAAACAAACTAATAACGACCTGAA
*
2409982 GAAGAAAAACATGATG
131 GAAGAAAAACATAATG
* * * * * * *
2409998 GGGAATATGTGTTTCTACAGTTTCCTATCAATAGCCAAAACAAACCGATAACAAGCTGAAGAAAA
1 GGGAATATATGTTTCTAAAATTT-CTATCAACAACCAAAACAAACTGACAACAAGCTGAA-AAAA
2410063 AGTGCATGATGAGGAATATGTGGATCTACAATTTCCTATCAATAGCCAAAACAAACTAATA
64 A---CATGATGAGGAATATGTGGATCTACAATTTCCTATCAATAGCC-AAACAAACTAATA
2410124 CAGGCTGATA
Statistics
Matches: 230, Mismatches: 34, Indels: 13
0.83 0.12 0.05
Matches are distributed among these distances:
144 3 0.01
145 6 0.03
146 81 0.35
147 33 0.14
148 45 0.20
149 10 0.04
151 39 0.17
152 13 0.06
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.25
Consensus pattern (146 bp):
GGGAATATATGTTTCTAAAATTTCTATCAACAACCAAAACAAACTGACAACAAGCTGAAAAAAAC
ATGATGAGGAATATGTGGATCTACAATTTCCTATCAATAGCCAAACAAACTAATAACGACCTGAA
GAAGAAAAACATAATG
Found at i:2410004 original size:75 final size:75
Alignment explanation
Indices: 2409538--2410123 Score: 309
Period size: 76 Copynumber: 7.9 Consensus size: 75
2409528 TAGGAGTTGA
* * * * * * * *
2409538 AAAAAAACATGATTAGGAAATATGTGGTTTCTTCACTTT-CTATCAATGGCTAAAACAAATTGAT
1 AAAAAAACATGATGAGG-AATATGTGG-ATCTACAATTTCCTATCAATAGCCAAAACAAACTAAT
* *
2409602 AACAAGCTAAAG
64 AACAACCTGAAG
* * * * * * * * * ** * *
2409614 TAGAAGATCATAATAAGGGATACGT-GATTCTATAATTTCCTACCAATAGCTGAAATAAACTAAC
1 -AAAAAAACATGATGAGGAATATGTGGA-TCTACAATTTCCTATCAATAGCCAAAACAAACTAAT
**
2409678 AACAAGTTGAAGG
64 AACAACCTGAA-G
** * * * * * * * *
2409691 AAAGGAACATGA-G-GGAATATATGGTTTCTAAAATTT-TTATCAACAACCAAAACAAACTGACA
1 AAAAAAACATGATGAGGAATATGTGG-ATCTACAATTTCCTATCAATAGCCAAAACAAACTAATA
* **
2409753 ATAAGTTGAA-
65 ACAACCTGAAG
* * * * * * *
2409763 AAAGAAACATGATGGGGAATATGTGGTTTCCTA-AATTT-CTATTAACAGCC-AAACAAATTGAT
1 AAAAAAACATGATGAGGAATATGTGG-AT-CTACAATTTCCTATCAATAGCCAAAACAAACTAAT
* *
2409825 AACGACTTGAAG
64 AACAACCTGAAG
* * * ** * * * * * *
2409837 AAGAAAAACATAATGGGGAATATATGTTTCTATAATTT-CTATCAACAACCATAACGAACTAACA
1 AA-AAAAACATGATGAGGAATATGTGGATCTACAATTTCCTATCAATAGCCAAAACAAACTAATA
*
2409901 ACAAGCT---G
65 ACAACCTGAAG
* * * *
2409909 AAAAAAACATGATAAGGAATATTTGGATCTACAATTTCCCATCAATAGTC-AAACAAACTAATAA
1 AAAAAAACATGATGAGGAATATGTGGATCTACAATTTCCTATCAATAGCCAAAACAAACTAATAA
**
2409973 TGACCTGAAG
66 CAACCTGAAG
* ** * **
2409983 AAGAAAAACATGATGGGGAATATGTGTTTCTACAGTTTCCTATCAATAGCCAAAACAAACCGATA
1 AA-AAAAACATGATGAGGAATATGTGGATCTACAATTTCCTATCAATAGCCAAAACAAACTAATA
*
2410048 ACAAGCTGAAG
65 ACAACCTGAAG
**
2410059 AAAAAGTGCATGATGAGGAATATGTGGATCTACAATTTCCTATCAATAGCCAAAACAAACTAATA
1 AAAAA-AACATGATGAGGAATATGTGGATCTACAATTTCCTATCAATAGCCAAAACAAACTAATA
2410124 CAGGCTGATA
Statistics
Matches: 389, Mismatches: 101, Indels: 39
0.74 0.19 0.07
Matches are distributed among these distances:
71 42 0.11
72 22 0.06
73 22 0.06
74 82 0.21
75 96 0.25
76 112 0.29
77 13 0.03
ACGTcount: A:0.44, C:0.15, G:0.16, T:0.25
Consensus pattern (75 bp):
AAAAAAACATGATGAGGAATATGTGGATCTACAATTTCCTATCAATAGCCAAAACAAACTAATAA
CAACCTGAAG
Found at i:2410308 original size:202 final size:201
Alignment explanation
Indices: 2409949--2410325 Score: 476
Period size: 202 Copynumber: 1.9 Consensus size: 201
2409939 ACAATTTCCC
* **
2409949 ATCAATAGTCAAACAAACTAATAATGACCTGAAGAAGAAAAACATGATGGGGAATATGTGTTTCT
1 ATCAATAGCCAAACAAACTAATAACAACCTGAAGAAGAAAAACATGATGGGGAATATGTGTTTCT
* * * **
2410014 ACAGTTTCCTATCAATAGCCAAAACAAACCGATAACAAGCTGAAGAAAAAGTGCATGATGAGGAA
66 AAAATTTCCTATCAACAGCCAAAACAAACCGATAACAAGCTGAAGAAAAAGAACATGATGAGGAA
* *
2410079 TATGTGGATCTACAATTTCCTATCAATAGCCAAAACAAACTAATACAGGCTGATAAAGTAGAACA
131 TATATGGATCTACAATTTCCCATCAATAGCCAAAACAAACTAATACAGGCTGATAAAGTAGAACA
2410144 TGAATT
196 TGAATT
* *
2410150 ATCAATAGCCGAAACAAACTAATAACAAGCTGATAGAA-AAGAACATGATGGGGAATATGTGGTT
1 ATCAATAGCC-AAACAAACTAATAACAACCTGA-AGAAGAAAAACATGATGGGGAATATGT-GTT
** ** * *
2410214 T-TAAAAATTTCC-ATCAACAGTTAAAACAAATTGATAACAGGGTGAAGAAGAAA-AACATGAT-
63 TCT-AAAATTTCCTATCAACAGCCAAAACAAACCGATAACAAGCTGAAGAA-AAAGAACATGATG
** *
2410275 AGGGAATATATGTTTCTACAATTTCCCATCAATAGCCAAAATAAACTAATA
126 A-GGAATATATGGATCTACAATTTCCCATCAATAGCCAAAACAAACTAATA
2410326 AAGTAATGAT
Statistics
Matches: 149, Mismatches: 21, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
201 10 0.07
202 121 0.81
203 18 0.12
ACGTcount: A:0.45, C:0.15, G:0.16, T:0.23
Consensus pattern (201 bp):
ATCAATAGCCAAACAAACTAATAACAACCTGAAGAAGAAAAACATGATGGGGAATATGTGTTTCT
AAAATTTCCTATCAACAGCCAAAACAAACCGATAACAAGCTGAAGAAAAAGAACATGATGAGGAA
TATATGGATCTACAATTTCCCATCAATAGCCAAAACAAACTAATACAGGCTGATAAAGTAGAACA
TGAATT
Found at i:2410533 original size:60 final size:60
Alignment explanation
Indices: 2410410--2410523 Score: 158
Period size: 60 Copynumber: 1.9 Consensus size: 60
2410400 AACTAGAAAC
* * * *
2410410 AATGGCTTGGGTAAAACCAAGACTCAAGAAAATGGCCTATATGAAACCAGAAACCTAATT
1 AATGACTTAGGTAAAACCAAGACTAAAGAAAATGGCCTAGATGAAACCAGAAACCTAATT
* *
2410470 AATGACTTAGGTAAAACCAAGACTTAAAG-AAATGGCCTGGATGAAACTAGAAAC
1 AATGACTTAGGTAAAACCAAGAC-TAAAGAAAATGGCCTAGATGAAACCAGAAAC
2410524 TTGAATAATG
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
60 43 0.91
61 4 0.09
ACGTcount: A:0.45, C:0.17, G:0.19, T:0.19
Consensus pattern (60 bp):
AATGACTTAGGTAAAACCAAGACTAAAGAAAATGGCCTAGATGAAACCAGAAACCTAATT
Found at i:2411080 original size:44 final size:43
Alignment explanation
Indices: 2411010--2411432 Score: 199
Period size: 44 Copynumber: 9.7 Consensus size: 43
2411000 ATATAATGGT
** * *
2411010 GCAAATGCACGTGAAATGATGTAAATGCAAGCATTAATAAAGTG
1 GCAAATGCATATGAAATGATGCAAATGCAAGCA-TAATAAAATG
*
2411054 GTAAATGCATATGAAATGATGCAAATGCCAATGTCAT-ATAAAATG
1 GCAAATGCATATGAAATGATGCAAATG-CAA-G-CATAATAAAATG
** * * *
2411099 TAAATATGC--ATGAAATAATGCAATTTTCAAGCATCAATGAAAA-G
1 GCAA-ATGCATATGAAATGATGCAA-ATGCAAGCAT-AAT-AAAATG
* * *
2411143 GCAAATGCACATGAAATGATGCTAATGCAATGTCAT-CTAAATTAT-
1 GCAAATGCATATGAAATGATGCAAATGCAA-G-CATAATAAA--ATG
** * * *
2411188 G--AATGTGTATGAAATGACGCAACTGCAAGTATCAATAAAATG
1 GCAAATGCATATGAAATGATGCAAATGCAAGCAT-AATAAAATG
*
2411230 GCAAATGCATATGAAATGATGCAAATACCAATGTCAT-ATAAAAT-
1 GCAAATGCATATGAAATGATGCAAAT-GCAA-G-CATAATAAAATG
* *** ** * * *
2411274 GCGAATGTGCATGAAACAATGCAAATGAAAGCATTAGTAAAGTG
1 GCAAATGCATATGAAATGATGCAAATGCAAGCA-TAATAAAATG
* * * *
2411318 GCAAATACGTATGAAATGATGTAAATGCTAATGTCA-ACTAAAAT-
1 GCAAATGCATATGAAATGATGCAAATGC-AA-G-CATAATAAAATG
* * * * **
2411362 TCAAAAGTGC--GTGAAATGATGCAAATGCAAGCATCACAACGTG
1 GC-AAA-TGCATATGAAATGATGCAAATGCAAGCATAATAAAATG
*
2411405 GCAAATGCATATGAAATAATGCAAATGC
1 GCAAATGCATATGAAATGATGCAAATGC
2411433 CTATGTGTAA
Statistics
Matches: 281, Mismatches: 63, Indels: 71
0.68 0.15 0.17
Matches are distributed among these distances:
41 11 0.04
42 14 0.05
43 59 0.21
44 125 0.44
45 53 0.19
46 13 0.05
47 6 0.02
ACGTcount: A:0.44, C:0.13, G:0.19, T:0.24
Consensus pattern (43 bp):
GCAAATGCATATGAAATGATGCAAATGCAAGCATAATAAAATG
Found at i:2411288 original size:88 final size:88
Alignment explanation
Indices: 2410985--2411438 Score: 434
Period size: 88 Copynumber: 5.2 Consensus size: 88
2410975 TCAAAACAAG
* * ** ** * * *
2410985 GCAAGTGCTAATGTCATATAATGGTGCAAATGCACGTGAAATGATGTAAATGCAAGCATTAATAA
1 GCAAATGCCAATGTCATATAA-AATGCAAATGTGCATGAAATGATGCAAATGCAAGCATCAATAA
*
2411050 AGTGGTAAATGCATATGAAATGAT
65 AGTGGCAAATGCATATGAAATGAT
* * * * *
2411074 GCAAATGCCAATGTCATATAAAATGTAAATATGCATGAAATAATGCAATTTTCAAGCATCAATGA
1 GCAAATGCCAATGTCATATAAAATGCAAATGTGCATGAAATGATGCAA-ATGCAAGCATCAAT-A
* *
2411139 AA-AGGCAAATGCACATGAAATGAT
64 AAGTGGCAAATGCATATGAAATGAT
* * * * * *
2411163 GCTAATG-CAATGTCATCTAAATTATG--AATGTGTATGAAATGACGCAACTGCAAGTATCAATA
1 GCAAATGCCAATGTCATATAAA--ATGCAAATGTGCATGAAATGATGCAAATGCAAGCATCAATA
*
2411225 AAATGGCAAATGCATATGAAATGAT
64 AAGTGGCAAATGCATATGAAATGAT
* * ** * * *
2411250 GCAAATACCAATGTCATATAAAATGCGAATGTGCATGAAACAATGCAAATGAAAGCATTAGTAAA
1 GCAAATGCCAATGTCATATAAAATGCAAATGTGCATGAAATGATGCAAATGCAAGCATCAATAAA
* *
2411315 GTGGCAAATACGTATGAAATGAT
66 GTGGCAAATGCATATGAAATGAT
* * * * * *
2411338 GTAAATGCTAATGTCA-ACTAAAATTCAAAAGTGCGTGAAATGATGCAAATGCAAGCATC-ACAA
1 GCAAATGCCAATGTCATA-TAAAATGCAAATGTGCATGAAATGATGCAAATGCAAGCATCAATAA
* *
2411401 CGTGGCAAATGCATATGAAATAAT
65 AGTGGCAAATGCATATGAAATGAT
*
2411425 GCAAATGCCTATGT
1 GCAAATGCCAATGT
2411439 GTAAACACCT
Statistics
Matches: 293, Mismatches: 63, Indels: 20
0.78 0.17 0.05
Matches are distributed among these distances:
86 6 0.02
87 70 0.24
88 156 0.53
89 55 0.19
90 6 0.02
ACGTcount: A:0.43, C:0.13, G:0.19, T:0.25
Consensus pattern (88 bp):
GCAAATGCCAATGTCATATAAAATGCAAATGTGCATGAAATGATGCAAATGCAAGCATCAATAAA
GTGGCAAATGCATATGAAATGAT
Found at i:2411353 original size:176 final size:176
Alignment explanation
Indices: 2411021--2411430 Score: 481
Period size: 176 Copynumber: 2.3 Consensus size: 176
2411011 CAAATGCACG
* * * *
2411021 TGAAATGATGTAAATGCAAGCATTAATAAAGTGGTAAATGCATATGAAATGATGCAAATGCCAAT
1 TGAAATGATGCAAATGCAAGCATCAATAAAGTGGCAAATGCATATGAAATGATGCAAATACCAAT
* * * ** *
2411086 GTCATATAAAATGTAAATATGCATGAAATAATGCAATTTTCAAGCATCAATGAAAAGGCAAATGC
66 GTCATATAAAATGCAAATATGCATGAAACAATGCAATATGAAAGCATCAATGAAAAGGCAAATAC
* * *
2411151 ACATGAAATGATGCTAATGCAATGTCATCT-AAATT-ATGAATGTGTA
131 ACATGAAATGATGCTAATGCAATGTCAACTAAAATTCA--AAAGTGCA
* * * *
2411197 TGAAATGACGCAACTGCAAGTATCAATAAAATGGCAAATGCATATGAAATGATGCAAATACCAAT
1 TGAAATGATGCAAATGCAAGCATCAATAAAGTGGCAAATGCATATGAAATGATGCAAATACCAAT
* * * * *
2411262 GTCATATAAAATGCGAATGTGCATGAAACAATGCAA-ATGAAAGCATTAGT-AAAGTGGCAAATA
66 GTCATATAAAATGCAAATATGCATGAAACAATGCAATATGAAAGCATCAATGAAA-AGGCAAATA
** *
2411325 CGTATGAAATGATG-TAAATGCTAATGTCAACTAAAATTCAAAAGTGCG
130 CACATGAAATGATGCT-AATGC-AATGTCAACTAAAATTCAAAAGTGCA
* * *
2411373 TGAAATGATGCAAATGCAAGCATC-ACAACGTGGCAAATGCATATGAAATAATGCAAAT
1 TGAAATGATGCAAATGCAAGCATCAATAAAGTGGCAAATGCATATGAAATGATGCAAAT
2411431 GCCTATGTGT
Statistics
Matches: 197, Mismatches: 32, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
174 4 0.02
175 63 0.32
176 124 0.63
177 5 0.03
178 1 0.01
ACGTcount: A:0.44, C:0.12, G:0.18, T:0.25
Consensus pattern (176 bp):
TGAAATGATGCAAATGCAAGCATCAATAAAGTGGCAAATGCATATGAAATGATGCAAATACCAAT
GTCATATAAAATGCAAATATGCATGAAACAATGCAATATGAAAGCATCAATGAAAAGGCAAATAC
ACATGAAATGATGCTAATGCAATGTCAACTAAAATTCAAAAGTGCA
Found at i:2412558 original size:164 final size:165
Alignment explanation
Indices: 2412218--2412570 Score: 391
Period size: 164 Copynumber: 2.1 Consensus size: 165
2412208 GATTTTCACA
* * * *
2412218 GGTTTATAAA-TTTTAAAATTCATCAAAGATTATTATTTAATTCATATTAAATAATTTGTGAAAA
1 GGTTTA-AAATTTTTAAAATTCATCAAAGATCATCATTTAATTCATATTAAACAATATGTGAAAA
* * *
2412282 ATTCATTTATTTTCATGAGTTTCTCATTTTTTCCTTGAAAATTTCCTATTTTCAAAAAACCGAGC
65 ATTCATTTATTTTCATGAGTTTCTCATTTTTTCCTTGAAAATCTCCTATTTTCAAAAAACCAAAC
*
2412347 TTTCTATTCCATAAAAGTTTTGGCGGGGGTTTTCTC
130 TTTCTATTCCATAAAAGTTTTGGAGGGGGTTTTCTC
* * * * *
2412383 AGCTCAAAATTTTTAAAATTCATCAAATATCATCATTTAATTCATATTAAAGCAGTAT-T-AAAA
1 GGTTTAAAATTTTTAAAATTCATCAAAGATCATCATTTAATTCATATTAAA-CAATATGTGAAAA
* *
2412446 ATTCATTTA-TTTCATGAGTTTTTCATTTTTTTCCTTG-AAATGCT-C-ATGTTTCTAAAAAATC
65 ATTCATTTATTTTCATGAGTTTCTCA-TTTTTTCCTTGAAAAT-CTCCTAT-TTTC-AAAAAACC
* * *
2412507 AAATTTTCTA-TCCTATAAATGTTTT-TAGGGGGTTTTCGTC
126 AAACTTTCTATTCC-ATAAAAGTTTTGGAGGGGGTTTTC-TC
* *
2412547 GGTTTAAAATTTTTATAATACATC
1 GGTTTAAAATTTTTAAAATTCATC
2412571 TGATATTATC
Statistics
Matches: 157, Mismatches: 23, Indels: 17
0.80 0.12 0.09
Matches are distributed among these distances:
162 2 0.01
163 37 0.24
164 73 0.46
165 42 0.27
166 3 0.02
ACGTcount: A:0.33, C:0.13, G:0.10, T:0.45
Consensus pattern (165 bp):
GGTTTAAAATTTTTAAAATTCATCAAAGATCATCATTTAATTCATATTAAACAATATGTGAAAAA
TTCATTTATTTTCATGAGTTTCTCATTTTTTCCTTGAAAATCTCCTATTTTCAAAAAACCAAACT
TTCTATTCCATAAAAGTTTTGGAGGGGGTTTTCTC
Found at i:2413155 original size:19 final size:19
Alignment explanation
Indices: 2413122--2413164 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
2413112 AATAGAGTGA
*
2413122 AAAAAAGAAATAAAAGA-AG
1 AAAAAAGAAAGAAAA-ATAG
*
2413141 AAAAAAGATAGAAAAATAG
1 AAAAAAGAAAGAAAAATAG
2413160 AAAAA
1 AAAAA
2413165 TCAAGCAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 1 0.05
19 20 0.95
ACGTcount: A:0.79, C:0.00, G:0.14, T:0.07
Consensus pattern (19 bp):
AAAAAAGAAAGAAAAATAG
Found at i:2414363 original size:13 final size:13
Alignment explanation
Indices: 2414345--2414369 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2414335 CATTATGCTT
2414345 TGTATCGATACAC
1 TGTATCGATACAC
2414358 TGTATCGATACA
1 TGTATCGATACA
2414370 TGTTCATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:2414367 original size:33 final size:32
Alignment explanation
Indices: 2414325--2414388 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
2414315 CTCACCCAGA
*
2414325 TGTATCGATACAT-TATGCTTTGTATCGATACAC
1 TGTATCGATACATGT-T-CATTGTATCGATACAC
2414358 TGTATCGATACATGTTCATTGTATCGATACA
1 TGTATCGATACATGTTCATTGTATCGATACA
2414389 TGGAAAATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 14 0.48
33 14 0.48
34 1 0.03
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.39
Consensus pattern (32 bp):
TGTATCGATACATGTTCATTGTATCGATACAC
Found at i:2414465 original size:20 final size:20
Alignment explanation
Indices: 2414440--2414492 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
2414430 TACCACTATT
*
2414440 TGTATCGATACATGGT-ACAA
1 TGTATCGATACATGATGA-AA
*
2414460 TGTATCGATACATGATGAAT
1 TGTATCGATACATGATGAAA
2414480 TGTATCGATACAT
1 TGTATCGATACAT
2414493 TGCTTGTAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 29 0.97
21 1 0.03
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.34
Consensus pattern (20 bp):
TGTATCGATACATGATGAAA
Found at i:2416750 original size:20 final size:21
Alignment explanation
Indices: 2416709--2416751 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
2416699 TATTAAAAAG
2416709 TTAGCTAATGAAAATAATGAA
1 TTAGCTAATGAAAATAATGAA
2416730 TTAGCTAA-GAAAAATAA-GAA
1 TTAGCTAATG-AAAATAATGAA
2416750 TT
1 TT
2416752 TGCATGATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.53, C:0.05, G:0.14, T:0.28
Consensus pattern (21 bp):
TTAGCTAATGAAAATAATGAA
Found at i:2420596 original size:13 final size:13
Alignment explanation
Indices: 2420578--2420604 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2420568 ACAATATTCC
2420578 TTGTATCGATACA
1 TTGTATCGATACA
2420591 TTGTATCGATACA
1 TTGTATCGATACA
2420604 T
1 T
2420605 GGGTTACTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2422495 original size:22 final size:22
Alignment explanation
Indices: 2422477--2422532 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
2422467 AGATTTGACA
2422477 AAGGGGGAGAAATGCTTTGATT
1 AAGGGGGAGAAATGCTTTGATT
* *
2422499 AAGGGGGAGAAATTCTTTAATT
1 AAGGGGGAGAAATGCTTTGATT
2422521 AAGGGGGAGAAA
1 AAGGGGGAGAAA
2422533 AATGAAAACT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.38, C:0.04, G:0.36, T:0.23
Consensus pattern (22 bp):
AAGGGGGAGAAATGCTTTGATT
Found at i:2423115 original size:19 final size:20
Alignment explanation
Indices: 2423091--2423143 Score: 72
Period size: 19 Copynumber: 2.7 Consensus size: 20
2423081 ATTGATACAC
**
2423091 TGTATCGATACATGTTC-AT
1 TGTATCGATACATGGACAAT
2423110 TGTATCGATACATGGACAAT
1 TGTATCGATACATGGACAAT
*
2423130 TGGATCGATACATG
1 TGTATCGATACATG
2423144 AAATTGGCAG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (20 bp):
TGTATCGATACATGGACAAT
Found at i:2423136 original size:20 final size:19
Alignment explanation
Indices: 2423094--2423143 Score: 64
Period size: 20 Copynumber: 2.6 Consensus size: 19
2423084 GATACACTGT
** *
2423094 ATCGATACATGTTCATTGT
1 ATCGATACATGGACATTGG
2423113 ATCGATACATGGACAATTGG
1 ATCGATACATGGAC-ATTGG
2423133 ATCGATACATG
1 ATCGATACATG
2423144 AAATTGGCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 12 0.44
20 15 0.56
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (19 bp):
ATCGATACATGGACATTGG
Found at i:2423209 original size:13 final size:13
Alignment explanation
Indices: 2423188--2423217 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
2423178 CGATACATGG
2423188 TACAATGTATCGA
1 TACAATGTATCGA
*
2423201 TACACTGTATCGA
1 TACAATGTATCGA
2423214 TACA
1 TACA
2423218 TGATGAATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.20, G:0.13, T:0.30
Consensus pattern (13 bp):
TACAATGTATCGA
Found at i:2423230 original size:33 final size:33
Alignment explanation
Indices: 2423173--2423235 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
2423163 TACCACTATT
*
2423173 TGTATCGATACATGGTACAATGTATCGATACAC
1 TGTATCGATACATGATACAATGTATCGATACAC
*
2423206 TGTATCGATACATGATGA-ATTGTATCGATA
1 TGTATCGATACATGAT-ACAATGTATCGATA
2423236 AATTGCTTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
33 26 0.96
34 1 0.04
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.33
Consensus pattern (33 bp):
TGTATCGATACATGATACAATGTATCGATACAC
Found at i:2428993 original size:19 final size:20
Alignment explanation
Indices: 2428969--2429021 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
2428959 TATCAATACA
**
2428969 TGTATCGATACATGTTC-AT
1 TGTATCGATACATGCACAAT
2428988 TGTATCGATACATGCACAAT
1 TGTATCGATACATGCACAAT
2429008 TGTATCGATACATG
1 TGTATCGATACATG
2429022 AAACTGGCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (20 bp):
TGTATCGATACATGCACAAT
Found at i:2429089 original size:13 final size:13
Alignment explanation
Indices: 2429071--2429095 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2429061 CATGGCACAT
2429071 TGTATCGATACAA
1 TGTATCGATACAA
2429084 TGTATCGATACA
1 TGTATCGATACA
2429096 TAACGAATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2432331 original size:13 final size:13
Alignment explanation
Indices: 2432313--2432340 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2432303 ATATAAAGAT
2432313 CAATGTATCGATA
1 CAATGTATCGATA
2432326 CAATGTATCGATA
1 CAATGTATCGATA
2432339 CA
1 CA
2432341 TTTGAGTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:2432427 original size:32 final size:32
Alignment explanation
Indices: 2432385--2432455 Score: 124
Period size: 32 Copynumber: 2.2 Consensus size: 32
2432375 AGCTTCGTAG
2432385 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
* *
2432417 TGATACATTGTATCGATACAATACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
2432449 CGATACA
1 CGATACA
2432456 GTTACTTGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (32 bp):
CGATACATTGTATCGATACAACACTTATGTAT
Found at i:2432449 original size:19 final size:19
Alignment explanation
Indices: 2432393--2432478 Score: 67
Period size: 19 Copynumber: 4.7 Consensus size: 19
2432383 AGCGATACAT
*
2432393 TGTATCGATACAACACTTA
1 TGTATCGATACAATACTTA
*
2432412 TGTATTGATAC---A--T-
1 TGTATCGATACAATACTTA
2432425 TGTATCGATACAATACTTA
1 TGTATCGATACAATACTTA
* *
2432444 TGTATCGATACAGTTACTTGTT
1 TGTATCGATACA-ATAC-T-TA
2432466 TGTATCGATACAA
1 TGTATCGATACAA
2432479 ATTATTGAAT
Statistics
Matches: 53, Mismatches: 5, Indels: 16
0.72 0.07 0.22
Matches are distributed among these distances:
13 10 0.19
14 1 0.02
16 2 0.04
18 1 0.02
19 22 0.42
20 3 0.06
21 1 0.02
22 13 0.25
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (19 bp):
TGTATCGATACAATACTTA
Found at i:2432472 original size:22 final size:19
Alignment explanation
Indices: 2432424--2432478 Score: 65
Period size: 22 Copynumber: 2.7 Consensus size: 19
2432414 TATTGATACA
2432424 TTGTATCGATACAATACTT
1 TTGTATCGATACAATACTT
* *
2432443 ATGTATCGATACAGTTACTTGT
1 TTGTATCGATACA-ATAC-T-T
2432465 TTGTATCGATACAA
1 TTGTATCGATACAA
2432479 ATTATTGAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 12 0.41
20 3 0.10
21 1 0.03
22 13 0.45
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.40
Consensus pattern (19 bp):
TTGTATCGATACAATACTT
Found at i:2434358 original size:15 final size:15
Alignment explanation
Indices: 2434335--2434365 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2434325 ATTAAAGATA
2434335 ATGAAGATAATGATG
1 ATGAAGATAATGATG
*
2434350 ATGATGATAATGATG
1 ATGAAGATAATGATG
2434365 A
1 A
2434366 ATTTGACATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.26, T:0.29
Consensus pattern (15 bp):
ATGAAGATAATGATG
Found at i:2438933 original size:13 final size:13
Alignment explanation
Indices: 2438915--2438941 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2438905 ACAATGTTCT
2438915 TTGTATCGATACA
1 TTGTATCGATACA
2438928 TTGTATCGATACA
1 TTGTATCGATACA
2438941 T
1 T
2438942 GGGTTACTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2442287 original size:15 final size:16
Alignment explanation
Indices: 2442267--2442296 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
2442257 AAATTTTTTA
2442267 AAAAAAATT-AAAAAG
1 AAAAAAATTGAAAAAG
2442282 AAAAAAATTGAAAAA
1 AAAAAAATTGAAAAA
2442297 TTAAGTGCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.13
Consensus pattern (16 bp):
AAAAAAATTGAAAAAG
Found at i:2444107 original size:47 final size:47
Alignment explanation
Indices: 2444048--2444322 Score: 250
Period size: 47 Copynumber: 5.8 Consensus size: 47
2444038 TTTATCTTTG
* * *
2444048 TTTAACTGTATTGGAATTAGGACCTAGTCAAACTCTTTTTACCCTCG
1 TTTAACTATATTGGCATTAGGACCTAGTCAAACTCTTTTTACCCTCA
* *
2444095 TTTGACTATATTGGCATTAGGACCTAGTCAAACTCTTTTCACCCTCA
1 TTTAACTATATTGGCATTAGGACCTAGTCAAACTCTTTTTACCCTCA
* * * * * * **
2444142 TTTAACTACATTGGCGTTA-GTCTTGGTCAAACTTTTTTTTCACCCTTG
1 TTTAACTATATTGGCATTAGGACCTAGTCAAAC-TCTTTTT-ACCCTCA
* * * * * ** **
2444190 TTTGATTGTATTGGCATTAGGACTTAGCCAAACTCTTTCCATTCTCA
1 TTTAACTATATTGGCATTAGGACCTAGTCAAACTCTTTTTACCCTCA
* * *
2444237 TTTGACTGTATTGGGATTAGGACCTAGTCAAACT-TTTTCTCACCCTCA
1 TTTAACTATATTGGCATTAGGACCTAGTCAAACTCTTTT-T-ACCCTCA
* *
2444285 TTTAACTATATTGGCGTTAGGACCTGGTCAAACT-TTTT
1 TTTAACTATATTGGCATTAGGACCTAGTCAAACTCTTTT
2444323 CGATTCTCAT
Statistics
Matches: 180, Mismatches: 43, Indels: 9
0.78 0.19 0.04
Matches are distributed among these distances:
46 13 0.07
47 96 0.53
48 61 0.34
49 10 0.06
ACGTcount: A:0.23, C:0.21, G:0.15, T:0.40
Consensus pattern (47 bp):
TTTAACTATATTGGCATTAGGACCTAGTCAAACTCTTTTTACCCTCA
Found at i:2444243 original size:142 final size:144
Alignment explanation
Indices: 2444045--2444322 Score: 398
Period size: 142 Copynumber: 1.9 Consensus size: 144
2444035 CTTTTTATCT
* ** *
2444045 TTGTTTAACTGTATTGGAATTAGGACCTAGTCAAACTCTTTTTACCCTCGTTTGACTATATTGGC
1 TTGTTTAACTGTATTGGAATTAGGACCTAGCCAAACTCTTTCCACCCTCATTTGACTATATTGGC
* *
2444110 ATTAGGACCTAGTCAAACTCTTT-TCACCCTCATTTAACTACATTGGCGTTA-GTCTTGGTCAAA
66 ATTAGGACCTAGTCAAACTCTTTCTCACCCTCATTTAACTACATTGGCGTTAGGACCTGGTCAAA
2444173 CTTTTTTTTCACCC
131 CTTTTTTTTCACCC
* * * * ** * *
2444187 TTGTTTGATTGTATTGGCATTAGGACTTAGCCAAACTCTTTCCATTCTCATTTGACTGTATTGGG
1 TTGTTTAACTGTATTGGAATTAGGACCTAGCCAAACTCTTTCCACCCTCATTTGACTATATTGGC
* *
2444252 ATTAGGACCTAGTCAAACTTTTTCTCACCCTCATTTAACTATATTGGCGTTAGGACCTGGTCAAA
66 ATTAGGACCTAGTCAAACTCTTTCTCACCCTCATTTAACTACATTGGCGTTAGGACCTGGTCAAA
2444317 CTTTTT
131 CTTTTT
2444323 CGATTCTCAT
Statistics
Matches: 118, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
142 75 0.64
143 27 0.23
144 16 0.14
ACGTcount: A:0.23, C:0.21, G:0.15, T:0.40
Consensus pattern (144 bp):
TTGTTTAACTGTATTGGAATTAGGACCTAGCCAAACTCTTTCCACCCTCATTTGACTATATTGGC
ATTAGGACCTAGTCAAACTCTTTCTCACCCTCATTTAACTACATTGGCGTTAGGACCTGGTCAAA
CTTTTTTTTCACCC
Done.