Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold23
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: 3824748
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 177433 characters in sequence are not A, C, G, or T
File 9 of 14
Found at i:2213461 original size:20 final size:19
Alignment explanation
Indices: 2213432--2213469 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
2213422 CCTCATTTTT
*
2213432 TTTCTTTTTTATTATTCTTG
1 TTTCTCTTTTATT-TTCTTG
2213452 TTTCTCTTTTATTTTCTT
1 TTTCTCTTTTATTTTCTT
2213470 TTATTGGTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.08, C:0.13, G:0.03, T:0.76
Consensus pattern (19 bp):
TTTCTCTTTTATTTTCTTG
Found at i:2217223 original size:20 final size:20
Alignment explanation
Indices: 2217194--2217239 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
2217184 TATTCTAACT
2217194 AAATAATTAAAATATA-AAAA
1 AAATAATTAAAAT-TACAAAA
* *
2217214 AAATATTTAATATTACAAAA
1 AAATAATTAAAATTACAAAA
2217234 AAATAA
1 AAATAA
2217240 AAATATATGA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 2 0.09
20 20 0.91
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (20 bp):
AAATAATTAAAATTACAAAA
Found at i:2222349 original size:15 final size:16
Alignment explanation
Indices: 2222329--2222367 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
2222319 GTTGGGTAGC
2222329 AGGTTGAGGGA-CAGT
1 AGGTTGAGGGAGCAGT
*
2222344 AGGTTGA-TGAGCAGT
1 AGGTTGAGGGAGCAGT
2222359 AGGTTGAGG
1 AGGTTGAGG
2222368 TGACGAAGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
14 2 0.10
15 18 0.90
ACGTcount: A:0.26, C:0.05, G:0.46, T:0.23
Consensus pattern (16 bp):
AGGTTGAGGGAGCAGT
Found at i:2225800 original size:13 final size:13
Alignment explanation
Indices: 2225782--2225807 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2225772 AACCAGTTAG
2225782 CACTAGCAATGAA
1 CACTAGCAATGAA
2225795 CACTAGCAATGAA
1 CACTAGCAATGAA
2225808 GCAAATTGAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.23, G:0.15, T:0.15
Consensus pattern (13 bp):
CACTAGCAATGAA
Found at i:2228124 original size:23 final size:22
Alignment explanation
Indices: 2228089--2228146 Score: 57
Period size: 21 Copynumber: 2.7 Consensus size: 22
2228079 CGTCACCTCA
*
2228089 CACGCA-GTAGCCCCCTGCACGT
1 CACGCACGTCGCCCCC-GCACGT
*
2228111 CGCGCACGTCG-CCCCGCACGT
1 CACGCACGTCGCCCCCGCACGT
* *
2228132 TACGCACGTTGCCCC
1 CACGCACGTCGCCCC
2228147 GCGCTTCAGC
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
21 14 0.48
22 12 0.41
23 3 0.10
ACGTcount: A:0.14, C:0.48, G:0.24, T:0.14
Consensus pattern (22 bp):
CACGCACGTCGCCCCCGCACGT
Found at i:2228131 original size:21 final size:21
Alignment explanation
Indices: 2228100--2228148 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
2228090 ACGCAGTAGC
*
2228100 CCCCTGCACGTCGCGCACGTCG
1 CCCC-GCACGTCACGCACGTCG
* *
2228122 CCCCGCACGTTACGCACGTTG
1 CCCCGCACGTCACGCACGTCG
2228143 CCCCGC
1 CCCCGC
2228149 GCTTCAGCGC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.10, C:0.51, G:0.24, T:0.14
Consensus pattern (21 bp):
CCCCGCACGTCACGCACGTCG
Found at i:2229086 original size:30 final size:31
Alignment explanation
Indices: 2229019--2229090 Score: 85
Period size: 30 Copynumber: 2.3 Consensus size: 31
2229009 TGGTTATTTC
*
2229019 AATATATATATATGTGCATATATGTATCTTAT
1 AATATATATATATGT-CATATATGTATATTAT
* *
2229051 TATATATATATATGT-ATATAATTTA-ATTAT
1 AATATATATATATGTCATAT-ATGTATATTAT
2229081 AATATATATA
1 AATATATATA
2229091 GATACATACT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
30 17 0.49
31 4 0.11
32 14 0.40
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.49
Consensus pattern (31 bp):
AATATATATATATGTCATATATGTATATTAT
Found at i:2229296 original size:26 final size:24
Alignment explanation
Indices: 2229267--2229316 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
2229257 TTTATCTTCA
* *
2229267 TGACTTTTGTATATATATATATGCAT
1 TGACATTT-TATA-ATACATATGCAT
2229293 TGACATTTTATAATACATATGCAT
1 TGACATTTTATAATACATATGCAT
2229317 CTTTTATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 11 0.50
25 4 0.18
26 7 0.32
ACGTcount: A:0.34, C:0.10, G:0.10, T:0.46
Consensus pattern (24 bp):
TGACATTTTATAATACATATGCAT
Found at i:2230614 original size:43 final size:43
Alignment explanation
Indices: 2230558--2230717 Score: 187
Period size: 43 Copynumber: 3.7 Consensus size: 43
2230548 TTTTAGAAAT
*
2230558 AAACGCCGCTAAAGACCATGACTTTTAGCGGCGCATTTCCCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCATTTCCCAC
* * * * *
2230601 AAATGCCGTTAAAGACCAAGACCTTTAGCGACGCTTTTCCCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCATTTCCCAC
* **
2230644 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTGTCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGC-ATTTCCCAC
* * * *
2230688 AAACACCGCTATAGATCA-AACCTTTAGCGG
1 AAACGCCGCTAAAGACCATGACCTTTAGCGG
2230718 TGCTTCTCGC
Statistics
Matches: 100, Mismatches: 16, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
43 78 0.78
44 22 0.22
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.23
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCATTTCCCAC
Found at i:2230711 original size:86 final size:86
Alignment explanation
Indices: 2230558--2230716 Score: 221
Period size: 86 Copynumber: 1.8 Consensus size: 86
2230548 TTTTAGAAAT
* ** *
2230558 AAACGCCGCTAAAGACCATGACTTTTAGCGGCGCATTTCCCACAAATGCCGTTAAAGACCAAGAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCATTTCCCACAAACACCGCTAAAGACCAAGAC
2230623 CTTTAGCGACGCTTTTCCCAC
66 CTTTAGCGACGCTTTTCCCAC
* ** * *
2230644 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTGTCACAAACACCGCTATAGATCAA-A
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGC-ATTTCCCACAAACACCGCTAAAGACCAAGA
2230708 CCTTTAGCG
65 CCTTTAGCG
2230717 GTGCTTCTCG
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
86 43 0.68
87 20 0.32
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.23
Consensus pattern (86 bp):
AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCATTTCCCACAAACACCGCTAAAGACCAAGAC
CTTTAGCGACGCTTTTCCCAC
Found at i:2230734 original size:86 final size:86
Alignment explanation
Indices: 2230558--2230755 Score: 220
Period size: 86 Copynumber: 2.3 Consensus size: 86
2230548 TTTTAGAAAT
* ** *
2230558 AAACGCCGCTAAAGACCATGACTTTTAGCGGCGCATTTCCCACAAATGCCGTTAAAGACCAAGAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCATTTCCCACAAACACCGCTAAAGACCAAGAC
* *
2230623 CTTTAGCGACGCTTTTCCCAC
66 CTTTAGCGACGCTTCTCCCAA
* ** * *
2230644 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTGTCACAAACACCGCTATAGATCAA-A
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGC-ATTTCCCACAAACACCGCTAAAGACCAAGA
** *
2230708 CCTTTAGCGGTGCTTCTCGCAA
65 CCTTTAGCGACGCTTCTCCCAA
* * *
2230730 AAACGCCACTAAA-AACATAACCTTTA
1 AAACGCCGCTAAAGACCATGACCTTTA
2230756 AAAAACCTTT
Statistics
Matches: 94, Mismatches: 17, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
85 11 0.12
86 63 0.67
87 20 0.21
ACGTcount: A:0.31, C:0.30, G:0.16, T:0.23
Consensus pattern (86 bp):
AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCATTTCCCACAAACACCGCTAAAGACCAAGAC
CTTTAGCGACGCTTCTCCCAA
Found at i:2230813 original size:53 final size:53
Alignment explanation
Indices: 2230705--2230812 Score: 209
Period size: 52 Copynumber: 2.1 Consensus size: 53
2230695 GCTATAGATC
2230705 AAACCTTTAGCGGTGCTTCTCGCAAAAACGCCACTAAAAACATAACCTTTAAA
1 AAACCTTTAGCGGTGCTTCTCGCAAAAACGCCACTAAAAACATAACCTTTAAA
2230758 AAACCTTTAGCGGT-CTTCTCGCAAAAACGCCACTAAAAACATAACCTTTAAA
1 AAACCTTTAGCGGTGCTTCTCGCAAAAACGCCACTAAAAACATAACCTTTAAA
2230810 AAA
1 AAA
2230813 ATTATTTTAA
Statistics
Matches: 55, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 41 0.75
53 14 0.25
ACGTcount: A:0.42, C:0.26, G:0.10, T:0.22
Consensus pattern (53 bp):
AAACCTTTAGCGGTGCTTCTCGCAAAAACGCCACTAAAAACATAACCTTTAAA
Found at i:2236109 original size:41 final size:41
Alignment explanation
Indices: 2235958--2236088 Score: 194
Period size: 41 Copynumber: 3.2 Consensus size: 41
2235948 AGATTTTATT
* *
2235958 ATTAGCGGCGCTTTTTCAAAAACGCCTCTAAAGGCT--AGC
1 ATTAGCGGCGCTTTTCCAAAAACGCCACTAAAGGCTCGAGC
* *
2235997 ATTAGCGGCGCTTTTCCAAAAACGCCACTAAAGGCCCGAGT
1 ATTAGCGGCGCTTTTCCAAAAACGCCACTAAAGGCTCGAGC
* *
2236038 ATTAGCGGCGCTTTTCCAAAAAAGCAACTAAAGGCTCGAGC
1 ATTAGCGGCGCTTTTCCAAAAACGCCACTAAAGGCTCGAGC
2236079 ATTAGCGGCG
1 ATTAGCGGCG
2236089 TTTCTGTAAA
Statistics
Matches: 82, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
39 33 0.40
41 49 0.60
ACGTcount: A:0.30, C:0.26, G:0.23, T:0.21
Consensus pattern (41 bp):
ATTAGCGGCGCTTTTCCAAAAACGCCACTAAAGGCTCGAGC
Found at i:2236614 original size:20 final size:20
Alignment explanation
Indices: 2236578--2236616 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
2236568 ATATATGAAT
*
2236578 AATATATTTTAATTATATTC
1 AATATATTTAAATTATATTC
2236598 AATA-ATTTAAATATATATT
1 AATATATTTAAAT-TATATT
2236617 ATTTTATGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (20 bp):
AATATATTTAAATTATATTC
Found at i:2245570 original size:105 final size:105
Alignment explanation
Indices: 2245388--2245603 Score: 414
Period size: 105 Copynumber: 2.1 Consensus size: 105
2245378 CAATAGTTAT
2245388 TTGTAAATAAATTTGGTCGCTAGTTCGATACCATAGATGTGAACGCTTTTGCATAACTCGATGGA
1 TTGTAAATAAATTTGGTCGCTAGTTCGATACCATAGATGTGAACGCTTTTGCATAACTCGATGGA
*
2245453 GAGACATAGATATCACATAGTGCCCGGTGGAATACAGTAA
66 GAGACACAGATATCACATAGTGCCCGGTGGAATACAGTAA
2245493 TTGTAAATAAATTTGGTCGCTAGTTCGATACCATAGATGTGAACGCTTTTGCATAACTCGATGGA
1 TTGTAAATAAATTTGGTCGCTAGTTCGATACCATAGATGTGAACGCTTTTGCATAACTCGATGGA
*
2245558 GAGACACAGATATCGCATAGTGCCCGGTGGAATACAGTAA
66 GAGACACAGATATCACATAGTGCCCGGTGGAATACAGTAA
2245598 TTGTAA
1 TTGTAA
2245604 GAGGTAAGGA
Statistics
Matches: 109, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
105 109 1.00
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (105 bp):
TTGTAAATAAATTTGGTCGCTAGTTCGATACCATAGATGTGAACGCTTTTGCATAACTCGATGGA
GAGACACAGATATCACATAGTGCCCGGTGGAATACAGTAA
Found at i:2249456 original size:44 final size:43
Alignment explanation
Indices: 2249408--2249558 Score: 232
Period size: 43 Copynumber: 3.5 Consensus size: 43
2249398 TGTCCTAGAC
* * *
2249408 ATGGTCTTACATAGAAATCT-AGTATCGATGCCAATAGCCTAGCT
1 ATGGTCTTACA-CGAAATCTCA-AATCGATGCCAATAGCCCAGCT
2249452 ATGGTCTTACACGAAATCTCAAATCGATGCCAATAGCCCAGCT
1 ATGGTCTTACACGAAATCTCAAATCGATGCCAATAGCCCAGCT
* *
2249495 ATGGTTTTACACGAAATCTCAAATTGATGCCAATAGCCCAGCT
1 ATGGTCTTACACGAAATCTCAAATCGATGCCAATAGCCCAGCT
2249538 ATGGTCTTACACGAAATCTCA
1 ATGGTCTTACACGAAATCTCA
2249559 CCTCAGAAGT
Statistics
Matches: 100, Mismatches: 6, Indels: 3
0.92 0.06 0.03
Matches are distributed among these distances:
43 88 0.88
44 12 0.12
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (43 bp):
ATGGTCTTACACGAAATCTCAAATCGATGCCAATAGCCCAGCT
Found at i:2249750 original size:30 final size:30
Alignment explanation
Indices: 2249673--2249755 Score: 85
Period size: 31 Copynumber: 2.7 Consensus size: 30
2249663 ATCCAAAGCT
** * *
2249673 CAAATCAATTCGGTAATATATACCCATATA
1 CAAATCAATTCGACAATGTATACCCACATA
* * * *
2249703 CGAATCAAATTCAACAATGTATATCTACATA
1 CAAATC-AATTCGACAATGTATACCCACATA
2249734 CAAATCAATTCGACAATGTATA
1 CAAATCAATTCGACAATGTATA
2249756 AAACATATAC
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
30 20 0.48
31 22 0.52
ACGTcount: A:0.45, C:0.19, G:0.07, T:0.29
Consensus pattern (30 bp):
CAAATCAATTCGACAATGTATACCCACATA
Found at i:2249766 original size:31 final size:30
Alignment explanation
Indices: 2249697--2249766 Score: 70
Period size: 30 Copynumber: 2.3 Consensus size: 30
2249687 AATATATACC
* *
2249697 CATATACGAATCAAATTCAACAATGTATAT
1 CATATACAAATCAAATTCAACAATGTATAA
* *
2249727 CTACATACAAATC-AATTCGACAATGTATAAAA
1 C-ATATACAAATCAAATTCAACAATGTAT--AA
2249759 CATATACA
1 CATATACA
2249767 TTTAAATTCA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
30 15 0.47
31 15 0.47
32 2 0.06
ACGTcount: A:0.49, C:0.19, G:0.06, T:0.27
Consensus pattern (30 bp):
CATATACAAATCAAATTCAACAATGTATAA
Found at i:2272935 original size:41 final size:41
Alignment explanation
Indices: 2272885--2272982 Score: 135
Period size: 41 Copynumber: 2.4 Consensus size: 41
2272875 TTGATCTCGG
* * *
2272885 TTTCGCACACTTAGTGCCCGTTATTTAACATCATTATTTAA
1 TTTCACACACTTAGTGCCCGTTATTCAACATCATCATTTAA
* * *
2272926 TTTCACACACTTAGCGCTCGTTATTCAACCTCATCATTTAA
1 TTTCACACACTTAGTGCCCGTTATTCAACATCATCATTTAA
2272967 -TTCACACACTTAGTGC
1 TTTCACACACTTAGTGC
2272983 TAATCATATA
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
40 15 0.30
41 35 0.70
ACGTcount: A:0.27, C:0.27, G:0.09, T:0.38
Consensus pattern (41 bp):
TTTCACACACTTAGTGCCCGTTATTCAACATCATCATTTAA
Found at i:2273893 original size:25 final size:25
Alignment explanation
Indices: 2273848--2273896 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
2273838 TATTTGTTTA
*
2273848 ATTATAATATTATAATATAATATAT
1 ATTATAACATTATAATATAATATAT
2273873 ATTATAACATTTATAAT-TAATATA
1 ATTATAACA-TTATAATATAATATA
2273897 AAAACTATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (25 bp):
ATTATAACATTATAATATAATATAT
Found at i:2278344 original size:47 final size:47
Alignment explanation
Indices: 2278255--2278347 Score: 125
Period size: 47 Copynumber: 2.0 Consensus size: 47
2278245 AGAATCATTT
* ***
2278255 CAATATTTTCAACGACCAGCTTATCAAACCACTATTTTTTAAGACTG
1 CAATATTTTCAACGACCAGCTAATCAAACCACTATCACTTAAGACTG
*
2278302 CAATATTTTCAAC-ACCCAGCTAATTAAACCACTATCACTTAAGACT
1 CAATATTTTCAACGA-CCAGCTAATCAAACCACTATCACTTAAGACT
2278348 TTTATTTTAT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
46 1 0.03
47 39 0.98
ACGTcount: A:0.37, C:0.26, G:0.06, T:0.31
Consensus pattern (47 bp):
CAATATTTTCAACGACCAGCTAATCAAACCACTATCACTTAAGACTG
Found at i:2285267 original size:44 final size:45
Alignment explanation
Indices: 2285204--2285292 Score: 144
Period size: 44 Copynumber: 2.0 Consensus size: 45
2285194 GAATCATTTC
2285204 AATATTTTCAACGGCCAGCTAA-TAAACCACTATTGCTTAAGACT
1 AATATTTTCAACGGCCAGCTAATTAAACCACTATTGCTTAAGACT
* * *
2285248 AATATTTTCAACGTCCAGCTAATTTAACCACTATTGCTTTAGACT
1 AATATTTTCAACGGCCAGCTAATTAAACCACTATTGCTTAAGACT
2285293 TTTATTTTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
44 21 0.51
45 20 0.49
ACGTcount: A:0.34, C:0.22, G:0.10, T:0.34
Consensus pattern (45 bp):
AATATTTTCAACGGCCAGCTAATTAAACCACTATTGCTTAAGACT
Found at i:2288458 original size:81 final size:81
Alignment explanation
Indices: 2288331--2288489 Score: 228
Period size: 81 Copynumber: 2.0 Consensus size: 81
2288321 ATAACTTTTC
* ** * *
2288331 CTGTTGCGTCTGTTGGTTGTTCTGGTTCCAGAAAATACCAGCACTCCTTGCCAAATAACAGGATT
1 CTGTTGCGCCTGCAGGTTGGTCTGGTTCCAGAAAAGACCAGCACTCCTTGCCAAATAACAGGATT
2288396 TTTCTCTGAACTTGTG
66 TTTCTCTGAACTTGTG
** * **
2288412 CTGTTGCGCCTGCAGGTTGGTCTGGTTCCAGACTAGACCAGCACTCCTTGCCTAATAACTTGATT
1 CTGTTGCGCCTGCAGGTTGGTCTGGTTCCAGAAAAGACCAGCACTCCTTGCCAAATAACAGGATT
2288477 TTTCTCTGAACTT
66 TTTCTCTGAACTT
2288490 CGATCTTATA
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 68 1.00
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (81 bp):
CTGTTGCGCCTGCAGGTTGGTCTGGTTCCAGAAAAGACCAGCACTCCTTGCCAAATAACAGGATT
TTTCTCTGAACTTGTG
Found at i:2289800 original size:22 final size:23
Alignment explanation
Indices: 2289775--2289819 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
2289765 AAATAAATTT
2289775 ACTTAATAAA-AAAA-TCTATCAC
1 ACTT-ATAAATAAAACTCTATCAC
2289797 ACTTATAAATTAAAACTCTATCA
1 ACTTATAAA-TAAAACTCTATCA
2289820 AATTATATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 5 0.25
22 4 0.20
23 4 0.20
24 7 0.35
ACGTcount: A:0.51, C:0.18, G:0.00, T:0.31
Consensus pattern (23 bp):
ACTTATAAATAAAACTCTATCAC
Found at i:2289825 original size:23 final size:24
Alignment explanation
Indices: 2289784--2289832 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 24
2289774 TACTTAATAA
*
2289784 AAAAATCTATCACACTTATAAATT
1 AAAAATCTATCACAATTATAAATT
* *
2289808 AAAACTCTATCA-AATTATATATT
1 AAAAATCTATCACAATTATAAATT
2289831 AA
1 AA
2289833 CTAAAAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 11 0.50
24 11 0.50
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (24 bp):
AAAAATCTATCACAATTATAAATT
Found at i:2297786 original size:16 final size:16
Alignment explanation
Indices: 2297765--2297796 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
2297755 TAGCTAAGTA
*
2297765 TGAATGGGAATTTGTG
1 TGAATGAGAATTTGTG
2297781 TGAATGAGAATTTGTG
1 TGAATGAGAATTTGTG
2297797 CAGTTAAGCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.34, T:0.38
Consensus pattern (16 bp):
TGAATGAGAATTTGTG
Found at i:2317944 original size:9 final size:9
Alignment explanation
Indices: 2317930--2317966 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
2317920 TATAGTTTGA
2317930 TATTCGAAT
1 TATTCGAAT
2317939 TATTCGAAT
1 TATTCGAAT
*
2317948 TATTCGAGT
1 TATTCGAAT
2317957 TATTCGAAT
1 TATTCGAAT
2317966 T
1 T
2317967 TGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:2318037 original size:9 final size:9
Alignment explanation
Indices: 2318020--2318050 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
2318010 TCGAGTTGAT
2318020 TCGAATAAC
1 TCGAATAAC
*
2318029 TCGATTAAC
1 TCGAATAAC
2318038 TCGAATAAC
1 TCGAATAAC
2318047 TCGA
1 TCGA
2318051 TTCATTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:2318600 original size:26 final size:26
Alignment explanation
Indices: 2318568--2318617 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
2318558 TTGTAGTGGC
*
2318568 TGATTTGACTAATTAATTCTATTAGT
1 TGATTTGACCAATTAATTCTATTAGT
*
2318594 TGATTTGACCAATTGATTCTATTA
1 TGATTTGACCAATTAATTCTATTA
2318618 ATTGTTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.30, C:0.10, G:0.12, T:0.48
Consensus pattern (26 bp):
TGATTTGACCAATTAATTCTATTAGT
Found at i:2320970 original size:18 final size:17
Alignment explanation
Indices: 2320947--2320980 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
2320937 ACATAATGAG
2320947 AAATATCAATTTTATCAA
1 AAATAT-AATTTTATCAA
*
2320965 AAATATATTTTTATCA
1 AAATATAATTTTATCA
2320981 TATAATTAGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (17 bp):
AAATATAATTTTATCAA
Found at i:2327657 original size:18 final size:18
Alignment explanation
Indices: 2327636--2327675 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
2327626 AAAAATATAA
*
2327636 TTTATTATTTTAATATTT
1 TTTATTATTTTAATAATT
*
2327654 TTTATTATTTTTATAATT
1 TTTATTATTTTAATAATT
2327672 TTTA
1 TTTA
2327676 AAGAATTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTATTATTTTAATAATT
Found at i:2329313 original size:7 final size:7
Alignment explanation
Indices: 2329301--2329326 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
2329291 TCTGCCCGTA
2329301 CATTTAG
1 CATTTAG
2329308 CATTTAG
1 CATTTAG
2329315 CATTTAG
1 CATTTAG
2329322 CATTT
1 CATTT
2329327 TCCTTAACCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.15, G:0.12, T:0.46
Consensus pattern (7 bp):
CATTTAG
Found at i:2336866 original size:19 final size:19
Alignment explanation
Indices: 2336842--2336878 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
2336832 AGATATTATT
2336842 TCTTTCTAATAGATTAATG
1 TCTTTCTAATAGATTAATG
2336861 TCTTTCTAATAGATTAAT
1 TCTTTCTAATAGATTAAT
2336879 ATCATATCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.11, G:0.08, T:0.49
Consensus pattern (19 bp):
TCTTTCTAATAGATTAATG
Found at i:2336890 original size:19 final size:19
Alignment explanation
Indices: 2336846--2336890 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
2336836 ATTATTTCTT
* *
2336846 TCTAATAGATTAATGTCTT
1 TCTAATAGATTAATATCTA
2336865 TCTAATAGATTAATATCATA
1 TCTAATAGATTAATATC-TA
2336885 TC-AATA
1 TCTAATA
2336891 ATTTCAGAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 20 0.87
20 3 0.13
ACGTcount: A:0.40, C:0.11, G:0.07, T:0.42
Consensus pattern (19 bp):
TCTAATAGATTAATATCTA
Found at i:2340844 original size:27 final size:27
Alignment explanation
Indices: 2340806--2340858 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
2340796 CTGTTCTGTT
*
2340806 ACCTTCATCATCATCACCAAACCCCCC
1 ACCTTCATCATCATCAACAAACCCCCC
2340833 ACCTTCATCATCATCAACAAACCCCC
1 ACCTTCATCATCATCAACAAACCCCC
2340859 TATATTCTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.32, C:0.49, G:0.00, T:0.19
Consensus pattern (27 bp):
ACCTTCATCATCATCAACAAACCCCCC
Found at i:2359505 original size:341 final size:340
Alignment explanation
Indices: 2358867--2359544 Score: 1000
Period size: 341 Copynumber: 2.0 Consensus size: 340
2358857 ATCCATTCAC
*
2358867 ATGCACATAAATCACATAATATAACTTTTAGACATGTATGCACATAATATCAAAGATGCCATACA
1 ATGCACATAAATCACATAACATAACTTTTAGACATGTATGCACATAATATCAAAGATGCCATACA
* *
2358932 ATTTCGATTTTAAACAAGATTTATCCTACCCCACCGCTACACACCACATTGGGGGTCCCCAGAAC
66 ATTTAGATTTTAAACAAGATTTATCCTACCCCACCGCTACACACCACATTGGGGGTCCCCAAAAC
* * * * * * *
2358997 TTCAACTACCATTACACCAAATTGTGGAATAACCACCATTAGTTTGTAGTTTTTACTGCCAAAGT
131 TCCAACCACCATCAAACCAAATTGTGGAATAACCACCATTAGTTTGCAGTTTTTACTACCAAAGG
* * * * *
2359062 CTATGGACACACAGCAAATTGACATAGTCGGAATCTATTTTGGTTGTAGGTACACAACAAAATAT
196 CTATGGACACACAACAAACTGACACAGTCGGAATCTACTCTGGTTGTAGGTACACAACAAAATAT
* * *
2359127 TACAGATGAAACCTGCCAATGTCCGTGGAAGCACAACATACTCGCAGATAAAAGCTGTCAAAGGG
261 TACAGATGAAACCTACCAATGACCGTGGAAGCACAACATACTCGCAAATAAAAGCTGTCAAAGGG
2359192 TTGTGATTGCACGGT
326 TTGTGATTGCACGGT
* *
2359207 ATGCACATAAATCACATGACATAACTTTTAGACATGTATGCACATGATATCAAAGATGCCATACA
1 ATGCACATAAATCACATAACATAACTTTTAGACATGTATGCACATAATATCAAAGATGCCATACA
* * * *
2359272 ATTTTAG-TTTTAAAC-AGAATTTATCCTACCCCACCGCTACACACCATATTGGGAGTTTCTCAA
66 A-TTTAGATTTTAAACAAG-ATTTATCCTACCCCACCGCTACACACCACATTGGG-GGTCCCCAA
* * * *
2359335 AACTCCAACCACCATCAAACCAGATTGTGGAATAGCCAGCGTTAGTTTGCAGTTTTTACTACCAA
128 AACTCCAACCACCATCAAACCAAATTGTGGAATAACCACCATTAGTTTGCAGTTTTTACTACCAA
* * ** *
2359400 TGGCTGTGGACACACAACAAACTGATGCAGTTGGAATCTACTCTGGTTGTAGGTACACAACAAAA
193 AGGCTATGGACACACAACAAACTGACACAGTCGGAATCTACTCTGGTTGTAGGTACACAACAAAA
* *
2359465 TATTACAGATGAAACCTACCAATGACCGTGGAAGCACAACATACTCGCAAATAAAAGCTGTTAGA
258 TATTACAGATGAAACCTACCAATGACCGTGGAAGCACAACATACTCGCAAATAAAAGCTGTCAAA
2359530 GGGTTGTGATTGCAC
323 GGGTTGTGATTGCAC
2359545 TGTAAACTGA
Statistics
Matches: 300, Mismatches: 35, Indels: 5
0.88 0.10 0.01
Matches are distributed among these distances:
339 2 0.01
340 105 0.35
341 193 0.64
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.26
Consensus pattern (340 bp):
ATGCACATAAATCACATAACATAACTTTTAGACATGTATGCACATAATATCAAAGATGCCATACA
ATTTAGATTTTAAACAAGATTTATCCTACCCCACCGCTACACACCACATTGGGGGTCCCCAAAAC
TCCAACCACCATCAAACCAAATTGTGGAATAACCACCATTAGTTTGCAGTTTTTACTACCAAAGG
CTATGGACACACAACAAACTGACACAGTCGGAATCTACTCTGGTTGTAGGTACACAACAAAATAT
TACAGATGAAACCTACCAATGACCGTGGAAGCACAACATACTCGCAAATAAAAGCTGTCAAAGGG
TTGTGATTGCACGGT
Found at i:2363373 original size:17 final size:17
Alignment explanation
Indices: 2363351--2363386 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
2363341 AATTAATTTA
*
2363351 AATTAATTAATTTTTTC
1 AATTAAATAATTTTTTC
2363368 AATTAAATAATTTTTTC
1 AATTAAATAATTTTTTC
2363385 AA
1 AA
2363387 CCTAATTCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.53
Consensus pattern (17 bp):
AATTAAATAATTTTTTC
Found at i:2364313 original size:16 final size:15
Alignment explanation
Indices: 2364289--2364322 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
2364279 TTATGTTTTC
2364289 AAATAAAATAATGTAA
1 AAATAAAATAAT-TAA
*
2364305 AAATTAAATAATTAA
1 AAATAAAATAATTAA
2364320 AAA
1 AAA
2364323 GAATAAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (15 bp):
AAATAAAATAATTAA
Found at i:2365691 original size:40 final size:40
Alignment explanation
Indices: 2365636--2365715 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
2365626 GTTGGAATTA
2365636 TATGTTTCGTTGATACACTTACTAACTTCTAAAGTTATGT
1 TATGTTTCGTTGATACACTTACTAACTTCTAAAGTTATGT
*
2365676 TATGTTTCGTTGATACACTTACTAACTTCTGAAGTTATGT
1 TATGTTTCGTTGATACACTTACTAACTTCTAAAGTTATGT
2365716 GTATAGGAGT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.26, C:0.15, G:0.14, T:0.45
Consensus pattern (40 bp):
TATGTTTCGTTGATACACTTACTAACTTCTAAAGTTATGT
Found at i:2383834 original size:4 final size:4
Alignment explanation
Indices: 2383821--2383953 Score: 196
Period size: 4 Copynumber: 33.5 Consensus size: 4
2383811 TATAAGATAA
2383821 ACAT -CAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* *
2383868 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAC ACAC
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * * *
2383916 ACAT ACAC ACAC ACAC ACAC ACAC ACAT ACAT ACAT AC
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT AC
2383954 TTCCTTAACC
Statistics
Matches: 124, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
3 3 0.02
4 121 0.98
ACGTcount: A:0.50, C:0.31, G:0.00, T:0.20
Consensus pattern (4 bp):
ACAT
Found at i:2383915 original size:2 final size:2
Alignment explanation
Indices: 2383908--2383942 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
2383898 ATACATACAT
*
2383908 AC AC AC AC AC AT AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
2383943 TACATACATA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.46, G:0.00, T:0.03
Consensus pattern (2 bp):
AC
Found at i:2385037 original size:26 final size:26
Alignment explanation
Indices: 2384993--2385042 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
2384983 AAATATCACA
* *
2384993 AAAAGTTCAAGAGATCCTATAATGCT
1 AAAAGTTCAAGAGAACCTAAAATGCT
2385019 AAAAGTTTCAAGA-AACCTAAAATG
1 AAAAG-TTCAAGAGAACCTAAAATG
2385043 AAGAAAGATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 14 0.67
27 7 0.33
ACGTcount: A:0.48, C:0.14, G:0.14, T:0.24
Consensus pattern (26 bp):
AAAAGTTCAAGAGAACCTAAAATGCT
Found at i:2386244 original size:94 final size:94
Alignment explanation
Indices: 2386095--2386295 Score: 320
Period size: 94 Copynumber: 2.2 Consensus size: 94
2386085 TCATATATGG
* *
2386095 TTTAGGTTTAGGGTATGAGGG-T--TCATTATATAATGTTTATTATTTTTGGATTAGAGTTTTGA
1 TTTAGGTTTAGGGTTTTAGGGTTAATCATTATATAATGTTTATTATTTTTGGATTAGAGTTTTGA
*
2386157 GTTTAGGCTTTATGATGTAGGTTTAGTGT
66 ATTTAGGCTTTATGATGTAGGTTTAGTGT
*
2386186 TTTTGGTTTAGGGTTTTAGGGTTAATCATTATATAATGTTTATTA-TTTTGTGATTAGAGTTTTG
1 TTTAGGTTTAGGGTTTTAGGGTTAATCATTATATAATGTTTATTATTTTTG-GATTAGAGTTTTG
*
2386250 AATTTAGGGTTTATGATGTAGGTTTAGTGT
65 AATTTAGGCTTTATGATGTAGGTTTAGTGT
2386280 TTTAGGTTTAGGGTTT
1 TTTAGGTTTAGGGTTT
2386296 AGGAGTTTGG
Statistics
Matches: 100, Mismatches: 6, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
91 18 0.18
92 1 0.01
93 5 0.05
94 76 0.76
ACGTcount: A:0.21, C:0.01, G:0.26, T:0.51
Consensus pattern (94 bp):
TTTAGGTTTAGGGTTTTAGGGTTAATCATTATATAATGTTTATTATTTTTGGATTAGAGTTTTGA
ATTTAGGCTTTATGATGTAGGTTTAGTGT
Found at i:2386285 original size:14 final size:14
Alignment explanation
Indices: 2386268--2386334 Score: 64
Period size: 14 Copynumber: 4.7 Consensus size: 14
2386258 GTTTATGATG
*
2386268 TAGGTTTAGTGTTT
1 TAGGTTTAGGGTTT
2386282 TAGGTTTAGGG-TT
1 TAGGTTTAGGGTTT
*
2386295 TAGGAGTTTGGGGTTT
1 TA-G-GTTTAGGGTTT
* *
2386311 AAGGTTTGGGGTTT
1 TAGGTTTAGGGTTT
*
2386325 GAGGTTTAGG
1 TAGGTTTAGG
2386335 CCGCTTTAGT
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
13 4 0.09
14 30 0.67
15 8 0.18
16 3 0.07
ACGTcount: A:0.15, C:0.00, G:0.40, T:0.45
Consensus pattern (14 bp):
TAGGTTTAGGGTTT
Found at i:2386303 original size:8 final size:7
Alignment explanation
Indices: 2386252--2386334 Score: 55
Period size: 7 Copynumber: 11.9 Consensus size: 7
2386242 GAGTTTTGAA
2386252 TTTAGGG
1 TTTAGGG
* *
2386259 TTTATGA
1 TTTAGGG
*
2386266 TGTA-GG
1 TTTAGGG
*
2386272 TTTAGTGT
1 TTTAG-GG
2386280 TTTA-GG
1 TTTAGGG
2386286 TTTAGGG
1 TTTAGGG
2386293 TTTAGGAG
1 TTTAGG-G
*
2386301 TTTGGGG
1 TTTAGGG
*
2386308 TTTAAGG
1 TTTAGGG
*
2386315 TTTGGGG
1 TTTAGGG
2386322 TTT-GAGG
1 TTTAG-GG
2386329 TTTAGG
1 TTTAGG
2386335 CCGCTTTAGT
Statistics
Matches: 58, Mismatches: 12, Indels: 12
0.71 0.15 0.15
Matches are distributed among these distances:
6 10 0.17
7 36 0.62
8 12 0.21
ACGTcount: A:0.16, C:0.00, G:0.39, T:0.46
Consensus pattern (7 bp):
TTTAGGG
Found at i:2389711 original size:16 final size:16
Alignment explanation
Indices: 2389690--2389720 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2389680 GCCCGATTTT
2389690 ACAGAAAAAATAAAAA
1 ACAGAAAAAATAAAAA
*
2389706 ACAGAATAAATAAAA
1 ACAGAAAAAATAAAA
2389721 GGTTCCTCCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.77, C:0.06, G:0.06, T:0.10
Consensus pattern (16 bp):
ACAGAAAAAATAAAAA
Found at i:2391155 original size:45 final size:44
Alignment explanation
Indices: 2391106--2391209 Score: 131
Period size: 45 Copynumber: 2.3 Consensus size: 44
2391096 TTTGAAAACT
*
2391106 ATGTTAAGCTATGTTAAAC-A-TTTTGAATGTTAAGCATAGTTTTGA
1 ATGTTAAGCTATGTTAAACTAGTTTTGAATGTTAA--ACA-TTTTGA
*
2391151 ATGTTAAGCTATGTTAAGCTATGTTTTGAATGTTAAACATTTTGA
1 ATGTTAAGCTATGTTAAACTA-GTTTTGAATGTTAAACATTTTGA
2391196 ATGTTAAGCATATG
1 ATGTTAAGC-TATG
2391210 AGTTTCTGCA
Statistics
Matches: 53, Mismatches: 2, Indels: 7
0.85 0.03 0.11
Matches are distributed among these distances:
45 33 0.62
46 7 0.13
48 13 0.25
ACGTcount: A:0.33, C:0.07, G:0.18, T:0.42
Consensus pattern (44 bp):
ATGTTAAGCTATGTTAAACTAGTTTTGAATGTTAAACATTTTGA
Found at i:2391166 original size:10 final size:10
Alignment explanation
Indices: 2391151--2391175 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
2391141 ATAGTTTTGA
2391151 ATGTTAAGCT
1 ATGTTAAGCT
2391161 ATGTTAAGCT
1 ATGTTAAGCT
2391171 ATGTT
1 ATGTT
2391176 TTGAATGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.28, C:0.08, G:0.20, T:0.44
Consensus pattern (10 bp):
ATGTTAAGCT
Found at i:2391617 original size:21 final size:21
Alignment explanation
Indices: 2391593--2391665 Score: 67
Period size: 21 Copynumber: 3.3 Consensus size: 21
2391583 GTTTTGGGAC
2391593 TATTTATTTATATTTTCAGCG
1 TATTTATTTATATTTTCAGCG
* ***
2391614 TATTTAATATTATTGATATT-ATAT
1 TATTT-AT-TTA-T-ATTTTCAGCG
2391638 TATTTATTTATATTTTCAGCG
1 TATTTATTTATATTTTCAGCG
2391659 TATTTAT
1 TATTTAT
2391666 ATAAACATCT
Statistics
Matches: 39, Mismatches: 8, Indels: 10
0.68 0.14 0.18
Matches are distributed among these distances:
20 4 0.10
21 14 0.36
22 5 0.13
23 5 0.13
24 7 0.18
25 4 0.10
ACGTcount: A:0.29, C:0.05, G:0.07, T:0.59
Consensus pattern (21 bp):
TATTTATTTATATTTTCAGCG
Found at i:2392467 original size:9 final size:9
Alignment explanation
Indices: 2392453--2392892 Score: 116
Period size: 9 Copynumber: 50.4 Consensus size: 9
2392443 ACTATCACAT
2392453 CTTACATAA
1 CTTACATAA
*
2392462 CTTACATAG
1 CTTACATAA
*
2392471 CTTA-ATTA
1 CTTACATAA
*
2392479 --TACTTAA
1 CTTACATAA
2392486 CTTACATAA
1 CTTACATAA
*
2392495 CTTACATTA
1 CTTACATAA
*
2392504 --TACACAA
1 CTTACATAA
2392511 CTTACATAA
1 CTTACATAA
*
2392520 CTTTCATTATACA
1 C-TT-A-CATA-A
*
2392533 CATACATAA
1 CTTACATAA
2392542 CTTACATATA
1 CTTACATA-A
* *
2392552 -ATACACAA
1 CTTACATAA
2392560 -TATACATAA
1 CT-TACATAA
2392569 CTTACATAA
1 CTTACATAA
* *
2392578 TTTTCATAA
1 CTTACATAA
2392587 -TAGTACATATA
1 CT--TACATA-A
* *
2392598 CATAATATTGAA
1 C-TTACA-T-AA
2392610 CTTACATAA
1 CTTACATAA
* *
2392619 TTTTCATAA
1 CTTACATAA
2392628 --TACATAA
1 CTTACATAA
* *
2392635 GTTACTTAA
1 CTTACATAA
* *
2392644 TTTTCATAA
1 CTTACATAA
* *
2392653 --TAAAAAA
1 CTTACATAA
2392660 CTTACATAA
1 CTTACATAA
2392669 CTTACATAA
1 CTTACATAA
* *
2392678 TTTTCATAA
1 CTTACATAA
2392687 CTTACATAA
1 CTTACATAA
2392696 CTT--AT-A
1 CTTACATAA
* * *
2392702 CAGTACACAG
1 C-TTACATAA
*
2392712 CCTACATAA
1 CTTACATAA
* *
2392721 TTTTCATAA
1 CTTACATAA
2392730 --TACATAA
1 CTTACATAA
*
2392737 CTTACGTAA
1 CTTACATAA
2392746 -TTGATCATAA
1 CTT-A-CATAA
**
2392756 --TACAGCA
1 CTTACATAA
2392763 CTTACATAA
1 CTTACATAA
2392772 -TTGATCATAA
1 CTT-A-CATAA
**
2392782 --TACAGCA
1 CTTACATAA
2392789 CTTACATAA
1 CTTACATAA
* *
2392798 -TT-CACAG
1 CTTACATAA
2392805 CTTACATAA
1 CTTACATAA
*
2392814 -TATTCATAA
1 CT-TACATAA
2392823 --TACATAA
1 CTTACATAA
2392830 CTTACATAA
1 CTTACATAA
* *
2392839 TTTTCATAA
1 CTTACATAA
*
2392848 --TAAATAA
1 CTTACATAA
*
2392855 CTTACTTAA
1 CTTACATAA
2392864 --TACATAA
1 CTTACATAA
2392871 CTTACATAA
1 CTTACATAA
*
2392880 CTTACATAG
1 CTTACATAA
2392889 CTTA
1 CTTA
2392893 ATTATACTTA
Statistics
Matches: 310, Mismatches: 75, Indels: 92
0.65 0.16 0.19
Matches are distributed among these distances:
6 4 0.01
7 52 0.17
8 15 0.05
9 197 0.64
10 23 0.07
11 8 0.03
12 7 0.02
13 4 0.01
ACGTcount: A:0.43, C:0.18, G:0.03, T:0.36
Consensus pattern (9 bp):
CTTACATAA
Found at i:2392488 original size:24 final size:25
Alignment explanation
Indices: 2392455--2392699 Score: 132
Period size: 25 Copynumber: 9.8 Consensus size: 25
2392445 TATCACATCT
*
2392455 TACATAACTTACATAGCTTA-ATTA
1 TACATAACTTACATAACTTACATTA
*
2392479 TACTTAACTTACATAACTTACATTA
1 TACATAACTTACATAACTTACATTA
* *
2392504 TACACAACTTACATAACTTTCATTA
1 TACATAACTTACATAACTTACATTA
*
2392529 TAC---ACATACATAACTTACATATAA
1 TACATAACTTACATAACTTACAT-T-A
* *
2392553 TACACAA-TATACATAACTTACATAATT
1 TACATAACT-TACATAACTTACAT--TA
* *
2392580 TTCATAA-TAGTACAT-A--TACATAA
1 TACATAACT--TACATAACTTACATTA
* * * *
2392603 TA-TTGAACTTACATAATTTTCATAA
1 TACAT-AACTTACATAACTTACATTA
* * * * *
2392628 TACATAAGTTACTTAATTTTCATAA
1 TACATAACTTACATAACTTACATTA
* * *
2392653 TAAAAAACTTACATAACTTACATAATT
1 TACATAACTTACATAACTTACAT--TA
*
2392680 TTCATAACTTACATAACTTA
1 TACATAACTTACATAACTTA
2392700 TACAGTACAC
Statistics
Matches: 173, Mismatches: 31, Indels: 31
0.74 0.13 0.13
Matches are distributed among these distances:
22 21 0.12
23 5 0.03
24 23 0.13
25 77 0.45
26 1 0.01
27 39 0.23
28 7 0.04
ACGTcount: A:0.44, C:0.17, G:0.02, T:0.37
Consensus pattern (25 bp):
TACATAACTTACATAACTTACATTA
Found at i:2392514 original size:49 final size:50
Alignment explanation
Indices: 2392430--2392572 Score: 138
Period size: 49 Copynumber: 2.9 Consensus size: 50
2392420 TAAAAACATA
* * * *
2392430 ACTTAA-TTACATGACTATCACATCT-TACATAACTTACATAGCTTAATTAT
1 ACTTAACTTACATAACT-T-ACATATATACACAACTTACATAACTTAATTAT
*
2392480 ACTTAACTTACATAACTTACAT-TATACACAACTTACATAACTTTCATTAT
1 ACTTAACTTACATAACTTACATATATACACAACTTACATAAC-TTAATTAT
*
2392530 AC---ACATACATAACTTACATATAATACACAA-TATACATAACTTA
1 ACTTAACTTACATAACTTACATAT-ATACACAACT-TACATAACTTA
2392573 CATAATTTTC
Statistics
Matches: 81, Mismatches: 6, Indels: 14
0.80 0.06 0.14
Matches are distributed among these distances:
47 16 0.20
48 5 0.06
49 35 0.43
50 16 0.20
51 9 0.11
ACGTcount: A:0.43, C:0.21, G:0.01, T:0.35
Consensus pattern (50 bp):
ACTTAACTTACATAACTTACATATATACACAACTTACATAACTTAATTAT
Found at i:2392597 original size:34 final size:34
Alignment explanation
Indices: 2392559--2392686 Score: 104
Period size: 34 Copynumber: 3.8 Consensus size: 34
2392549 ATAATACACA
*
2392559 ATATACATAACTTACATAATTTTCATAATAGTAC
1 ATATACATAACTTACATAATTTTCATAATAATAC
* * * * *
2392593 ATATACATAA--TA-TTGAACTTACATAAT-TTTC
1 ATATACATAACTTACAT-AATTTTCATAATAATAC
* * * *
2392624 ATAATACATAAGTTACTTAATTTTCATAATAAAAA
1 AT-ATACATAACTTACATAATTTTCATAATAATAC
2392659 ACT-TACATAACTTACATAATTTTCATAA
1 A-TATACATAACTTACATAATTTTCATAA
2392687 CTTACATAAC
Statistics
Matches: 74, Mismatches: 13, Indels: 14
0.73 0.13 0.14
Matches are distributed among these distances:
31 5 0.07
32 20 0.27
34 45 0.61
35 3 0.04
36 1 0.01
ACGTcount: A:0.45, C:0.13, G:0.02, T:0.39
Consensus pattern (34 bp):
ATATACATAACTTACATAATTTTCATAATAATAC
Found at i:2392626 original size:25 final size:24
Alignment explanation
Indices: 2392598--2392799 Score: 102
Period size: 25 Copynumber: 7.9 Consensus size: 24
2392588 AGTACATATA
*
2392598 CATAATATTGAACTTACATAATTTT
1 CATAATAAT-AACTTACATAATTTT
* *
2392623 CATAATACATAAGTTACTTAATTTT
1 CATAATA-ATAACTTACATAATTTT
* * *
2392648 CATAATAAAAAACTTACATAACTTA
1 CATAAT-AATAACTTACATAATTTT
* *
2392673 CATAATTTTCATAACTTACATAA-CTT
1 CATAA---TAATAACTTACATAATTTT
* * *
2392699 -ATACAGTACACAGCCTACATAATTTT
1 CATA-A-TA-ATAACTTACATAATTTT
* *
2392725 CATAATACATAACTTACGTAATTGAT
1 CATAATA-ATAACTTACATAATT-TT
** *
2392751 CATAATACAGCACTTACATAATTGAT
1 CATAATA-ATAACTTACATAATT-TT
**
2392777 CATAATACAGCACTTACATAATT
1 CATAATA-ATAACTTACATAATT
2392800 CACAGCTTAC
Statistics
Matches: 141, Mismatches: 26, Indels: 19
0.76 0.14 0.10
Matches are distributed among these distances:
24 1 0.01
25 70 0.50
26 54 0.38
27 15 0.11
28 1 0.01
ACGTcount: A:0.43, C:0.17, G:0.04, T:0.36
Consensus pattern (24 bp):
CATAATAATAACTTACATAATTTT
Found at i:2392758 original size:26 final size:26
Alignment explanation
Indices: 2392714--2392799 Score: 129
Period size: 26 Copynumber: 3.3 Consensus size: 26
2392704 GTACACAGCC
* **
2392714 TACATAATT-TTCATAATACATAACT
1 TACATAATTGATCATAATACAGCACT
*
2392739 TACGTAATTGATCATAATACAGCACT
1 TACATAATTGATCATAATACAGCACT
2392765 TACATAATTGATCATAATACAGCACT
1 TACATAATTGATCATAATACAGCACT
2392791 TACATAATT
1 TACATAATT
2392800 CACAGCTTAC
Statistics
Matches: 55, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
25 8 0.15
26 47 0.85
ACGTcount: A:0.42, C:0.17, G:0.06, T:0.35
Consensus pattern (26 bp):
TACATAATTGATCATAATACAGCACT
Found at i:2392772 original size:16 final size:16
Alignment explanation
Indices: 2392751--2392815 Score: 54
Period size: 16 Copynumber: 4.4 Consensus size: 16
2392741 CGTAATTGAT
2392751 CATAATACAGCACTTA
1 CATAATACAGCACTTA
*
2392767 CATAAT--TG-A--T-
1 CATAATACAGCACTTA
2392777 CATAATACAGCACTTA
1 CATAATACAGCACTTA
*
2392793 CATAATTCA-CAGCTTA
1 CATAATACAGCA-CTTA
2392809 CATAATA
1 CATAATA
2392816 TTCATAATAC
Statistics
Matches: 38, Mismatches: 4, Indels: 14
0.68 0.07 0.25
Matches are distributed among these distances:
10 6 0.16
11 1 0.03
12 1 0.03
13 2 0.05
14 1 0.03
15 3 0.08
16 24 0.63
ACGTcount: A:0.43, C:0.22, G:0.06, T:0.29
Consensus pattern (16 bp):
CATAATACAGCACTTA
Found at i:2392792 original size:102 final size:101
Alignment explanation
Indices: 2392612--2392892 Score: 273
Period size: 102 Copynumber: 2.9 Consensus size: 101
2392602 ATATTGAACT
* * *
2392612 TACATAATTTTCATAATACATAAGTTACTTAATTTTCATAATAAAAAACTTACATAACTTACATA
1 TACATAATTTTCATAATACATAACTTACGTAATTATCATAATAAAAAACTTACATAACTTACATA
* *
2392677 ATTTTCATAACTTACATAACTTATACAGTACACAGCC
66 A-TTACAGAACTTACATAACTTATACAGTACACAGCC
* **
2392714 TACATAATTTTCATAATACATAACTTACGTAATTGATCATAATACAGCACTTACATAA-TTGATC
1 TACATAATTTTCATAATACATAACTTACGTAATT-ATCATAATAAAAAACTTACATAACTT-A-C
* *
2392778 ATAA-TACAGCACTTACAT-A---AT----T-CACAGCT
63 ATAATTACAGAACTTACATAACTTATACAGTACACAGCC
* * * * *
2392807 TACATAATATTCATAATACATAACTTACATAATTTTCATAATAAATAACTTACTTAA--TACATA
1 TACATAATTTTCATAATACATAACTTACGTAATTATCATAATAAAAAACTTACATAACTTACATA
* *
2392870 ACTTACATAACTTACATAGCTTA
66 A-TTACAGAACTTACATAACTTA
2392893 ATTATACTTA
Statistics
Matches: 150, Mismatches: 20, Indels: 25
0.77 0.10 0.13
Matches are distributed among these distances:
89 5 0.03
90 1 0.01
91 13 0.09
92 18 0.12
93 38 0.25
94 1 0.01
95 1 0.01
98 2 0.01
101 1 0.01
102 45 0.30
103 20 0.13
104 5 0.03
ACGTcount: A:0.43, C:0.18, G:0.04, T:0.36
Consensus pattern (101 bp):
TACATAATTTTCATAATACATAACTTACGTAATTATCATAATAAAAAACTTACATAACTTACATA
ATTACAGAACTTACATAACTTATACAGTACACAGCC
Found at i:2392821 original size:25 final size:25
Alignment explanation
Indices: 2392793--2392887 Score: 86
Period size: 25 Copynumber: 3.8 Consensus size: 25
2392783 ACAGCACTTA
* *
2392793 CATAATTCACAGCTTACATAATATT
1 CATAATACACAACTTACATAATATT
* *
2392818 CATAATACATAACTTACATAATTTT
1 CATAATACACAACTTACATAATATT
* * *
2392843 CATAATAAATAACTTACTTAATA--
1 CATAATACACAACTTACATAATATT
*
2392866 CATAACTTACATAACTTACATA
1 CATAA--TACACAACTTACATA
2392888 GCTTAATTAT
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
23 5 0.08
25 54 0.92
ACGTcount: A:0.45, C:0.18, G:0.01, T:0.36
Consensus pattern (25 bp):
CATAATACACAACTTACATAATATT
Found at i:2392837 original size:16 final size:16
Alignment explanation
Indices: 2392805--2392879 Score: 64
Period size: 16 Copynumber: 4.6 Consensus size: 16
2392795 TAATTCACAG
2392805 CTTACATAATATTCATAA
1 CTTACATAATA--CATAA
2392823 --TACATAACTTACATAA
1 CTTACATAA--TACATAA
* * *
2392839 TTTTCATAATAAATAA
1 CTTACATAATACATAA
*
2392855 CTTACTTAATACATAA
1 CTTACATAATACATAA
2392871 CTTACATAA
1 CTTACATAA
2392880 CTTACATAGC
Statistics
Matches: 46, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
16 38 0.83
18 8 0.17
ACGTcount: A:0.47, C:0.16, G:0.00, T:0.37
Consensus pattern (16 bp):
CTTACATAATACATAA
Found at i:2397664 original size:9 final size:9
Alignment explanation
Indices: 2397650--2397679 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
2397640 AAATTTCTAA
2397650 TTACATAAC
1 TTACATAAC
*
2397659 TTACATAAA
1 TTACATAAC
2397668 TTACATAAC
1 TTACATAAC
2397677 TTA
1 TTA
2397680 TACAATATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.47, C:0.17, G:0.00, T:0.37
Consensus pattern (9 bp):
TTACATAAC
Found at i:2397687 original size:55 final size:55
Alignment explanation
Indices: 2397620--2397826 Score: 274
Period size: 55 Copynumber: 3.7 Consensus size: 55
2397610 TATTAAGATT
* *
2397620 ACTTATATAATATTAAGATAAAATTTCTAATTACATAACTTACATAAATTACATA
1 ACTTATACAATATTAAGATAAAATTTCGAATTACATAACTTACATAAATTACATA
* * * * *
2397675 ACTTATACAATATTAAGGTAAGATTTCGAATTACATAACTCATACA-ATATTAAGATT
1 ACTTATACAATATTAAGATAAAATTTCGAATTACATAACT--TACATAAATT-ACATA
* *
2397732 ACTTATATAATATTAAGATAAAATTTCTAATTACATAACTTACATAAATTACATA
1 ACTTATACAATATTAAGATAAAATTTCGAATTACATAACTTACATAAATTACATA
*
2397787 ACTTATACAATATTAATG-TAAGATTTCGAATTACATAACT
1 ACTTATACAATATTAA-GATAAAATTTCGAATTACATAACT
2397827 CATACAATAT
Statistics
Matches: 130, Mismatches: 17, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
55 78 0.60
56 9 0.07
57 43 0.33
ACGTcount: A:0.46, C:0.12, G:0.05, T:0.37
Consensus pattern (55 bp):
ACTTATACAATATTAAGATAAAATTTCGAATTACATAACTTACATAAATTACATA
Found at i:2397776 original size:9 final size:9
Alignment explanation
Indices: 2397762--2397791 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
2397752 AAATTTCTAA
2397762 TTACATAAC
1 TTACATAAC
*
2397771 TTACATAAA
1 TTACATAAC
2397780 TTACATAAC
1 TTACATAAC
2397789 TTA
1 TTA
2397792 TACAATATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.47, C:0.17, G:0.00, T:0.37
Consensus pattern (9 bp):
TTACATAAC
Found at i:2397795 original size:112 final size:112
Alignment explanation
Indices: 2397598--2397840 Score: 477
Period size: 112 Copynumber: 2.2 Consensus size: 112
2397588 ATTTACTATT
2397598 TAACTCATACAATATTAAGATTACTTATATAATATTAAGATAAAATTTCTAATTACATAACTTAC
1 TAACTCATACAATATTAAGATTACTTATATAATATTAAGATAAAATTTCTAATTACATAACTTAC
2397663 ATAAATTACATAACTTATACAATATTAAGGTAAGATTTCGAATTACA
66 ATAAATTACATAACTTATACAATATTAAGGTAAGATTTCGAATTACA
2397710 TAACTCATACAATATTAAGATTACTTATATAATATTAAGATAAAATTTCTAATTACATAACTTAC
1 TAACTCATACAATATTAAGATTACTTATATAATATTAAGATAAAATTTCTAATTACATAACTTAC
*
2397775 ATAAATTACATAACTTATACAATATTAATGTAAGATTTCGAATTACA
66 ATAAATTACATAACTTATACAATATTAAGGTAAGATTTCGAATTACA
2397822 TAACTCATACAATATTAAG
1 TAACTCATACAATATTAAG
2397841 GTAAGATTTC
Statistics
Matches: 130, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
112 130 1.00
ACGTcount: A:0.47, C:0.12, G:0.05, T:0.37
Consensus pattern (112 bp):
TAACTCATACAATATTAAGATTACTTATATAATATTAAGATAAAATTTCTAATTACATAACTTAC
ATAAATTACATAACTTATACAATATTAAGGTAAGATTTCGAATTACA
Found at i:2397832 original size:37 final size:37
Alignment explanation
Indices: 2397777--2397864 Score: 140
Period size: 37 Copynumber: 2.4 Consensus size: 37
2397767 TAACTTACAT
* *
2397777 AAATTACATAACTTATACAATATTAATGTAAGATTTC
1 AAATTACATAACTCATACAATATTAAGGTAAGATTTC
*
2397814 GAATTACATAACTCATACAATATTAAGGTAAGATTTC
1 AAATTACATAACTCATACAATATTAAGGTAAGATTTC
*
2397851 AAATTACATGACTC
1 AAATTACATAACTC
2397865 CTGAAGCTGG
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.44, C:0.14, G:0.08, T:0.34
Consensus pattern (37 bp):
AAATTACATAACTCATACAATATTAAGGTAAGATTTC
Found at i:2398558 original size:43 final size:43
Alignment explanation
Indices: 2398504--2398689 Score: 191
Period size: 43 Copynumber: 4.3 Consensus size: 43
2398494 GCGTTTTTAT
*
2398504 AAAAGCGCCGCTAAAAGTCATGTTCTATAGCGGCGTTTGTGGA
1 AAAAGCGCCGCTAAAAGTCATGTTCTTTAGCGGCGTTTGTGGA
* * *
2398547 AAAAACGCCGCT-AAAGAACAT-TACTTCTAGCGGCGTTTGTGGA
1 AAAAGCGCCGCTAAAAG-TCATGTTCTT-TAGCGGCGTTTGTGGA
* * * *
2398590 GAAAGCGCCACTAAAGGTCATGTTCTTTAGTGGCGTTTGTTGG-
1 AAAAGCGCCGCTAAAAGTCATGTTCTTTAGCGGCGTTTG-TGGA
* * * * * *
2398633 -TATGCACCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTTGT
1 AAAAGCGCCGCTAAAAGTCATGTTCTTTAGCGGCGTTTGTGGA
2398675 AAAAGCGCCGCTAAA
1 AAAAGCGCCGCTAAA
2398690 GAACATGACT
Statistics
Matches: 116, Mismatches: 20, Indels: 14
0.77 0.13 0.09
Matches are distributed among these distances:
41 2 0.02
42 40 0.34
43 64 0.55
44 10 0.09
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.28
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAAGTCATGTTCTTTAGCGGCGTTTGTGGA
Found at i:2398704 original size:43 final size:42
Alignment explanation
Indices: 2398488--2398712 Score: 165
Period size: 43 Copynumber: 5.3 Consensus size: 42
2398478 AATCCTAAAA
* *
2398488 TTAGTGGCGTTT-TTATAAAAGCGCCGCTAAA-AGTCATG-TT
1 TTAGCGGCGTTTGTTGTAAAAGCGCCGCTAAAGA-TCATGCTT
* * * * *
2398528 CTATAGCGGCGTTTGTGGAAAAAACGCCGCTAAAGAACATTACTT
1 -T-TAGCGGCGTTTGTTGTAAAAGCGCCGCTAAAGATCA-TGCTT
* * * * *
2398573 CTAGCGGCGTTTG-TGGAGAAAGCGCCACTAAAGGTCATGTTCT
1 TTAGCGGCGTTTGTTGTA-AAAGCGCCGCTAAAGATCATGCT-T
* * * * *
2398616 TTAGTGGCGTTTGTTGGT--ATGCACCGCTAAAGGTCATGTTCT
1 TTAGCGGCGTTTGTT-GTAAAAGCGCCGCTAAAGATCATGCT-T
*
2398658 TTAGCGGCGTTTGTTGTAAAAGCGCCGCTAAAGAACATGACTT
1 TTAGCGGCGTTTGTTGTAAAAGCGCCGCTAAAGATCATG-CTT
2398701 TTAGCGGCGTTT
1 TTAGCGGCGTTT
2398713 ATTTCTGTAA
Statistics
Matches: 144, Mismatches: 28, Indels: 22
0.74 0.14 0.11
Matches are distributed among these distances:
41 3 0.02
42 49 0.34
43 85 0.59
44 4 0.03
45 3 0.02
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (42 bp):
TTAGCGGCGTTTGTTGTAAAAGCGCCGCTAAAGATCATGCTT
Found at i:2400164 original size:29 final size:31
Alignment explanation
Indices: 2400132--2400197 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
2400122 GATAGTTTAG
2400132 GTACCACATTGGACA-TTT-TCAAAGTACAT
1 GTACCACATTGGACATTTTATCAAAGTACAT
* * *
2400161 GTACCACTTTGGATATTTTATTAAAGTACAT
1 GTACCACATTGGACATTTTATCAAAGTACAT
2400192 GTACCA
1 GTACCA
2400198 TAATAAAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
29 13 0.41
30 3 0.09
31 16 0.50
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (31 bp):
GTACCACATTGGACATTTTATCAAAGTACAT
Found at i:2427766 original size:24 final size:25
Alignment explanation
Indices: 2427737--2427793 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 25
2427727 TTTTAAAATA
*
2427737 TTTTATATAATGCTCAATATT-ATT
1 TTTTATATAACGCTCAATATTAATT
* *
2427761 TTTTATACAACGTTCAATATTAATT
1 TTTTATATAACGCTCAATATTAATT
*
2427786 ATTTATAT
1 TTTTATAT
2427794 TTAACAACAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
24 18 0.67
25 9 0.33
ACGTcount: A:0.35, C:0.09, G:0.04, T:0.53
Consensus pattern (25 bp):
TTTTATATAACGCTCAATATTAATT
Found at i:2428515 original size:14 final size:14
Alignment explanation
Indices: 2428476--2428516 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
2428466 CTGAAGATAA
2428476 AAATATATAAAAGT
1 AAATATATAAAAGT
* *
2428490 AAAAATAGAAAAGT
1 AAATATATAAAAGT
*
2428504 AAATGTATAAAAG
1 AAATATATAAAAG
2428517 AAGATACCCG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.66, C:0.00, G:0.12, T:0.22
Consensus pattern (14 bp):
AAATATATAAAAGT
Found at i:2451050 original size:41 final size:42
Alignment explanation
Indices: 2450882--2451177 Score: 182
Period size: 42 Copynumber: 7.1 Consensus size: 42
2450872 TTTGGAATAT
* * * * * *
2450882 CGCCTCTAATGGTCGGGGT-TTTGGCGGCATTTTTTATTAAG
1 CGCCGCTAATGCTCGGAGTCTTTAGCGGCGTTTTTGATTAAG
** * * * *
2450923 CGCCGCTAATAATTAGG-GT-TTTAGCGGCGTTTATGGTCAAG
1 CGCCGCTAAT-GCTCGGAGTCTTTAGCGGCGTTTTTGATTAAG
* * * *
2450964 CGCTGCTATTGCTCAGG-GTATTTAGCGGCGTTTATGATTAAG
1 CGCCGCTAATGCTC-GGAGTCTTTAGCGGCGTTTTTGATTAAG
* *
2451006 CGCCGCTAATGC-CGTAGTCTTTAGCGGCGTTTTTGATGT-TG
1 CGCCGCTAATGCTCGGAGTCTTTAGCGGCGTTTTTGAT-TAAG
* * *
2451047 CGCCGCTAATGCTCGGGGTTTTTAGCGGCGTTTTTG-GTATAG
1 CGCCGCTAATGCTCGGAGTCTTTAGCGGCGTTTTTGATTA-AG
** * * *
2451089 CATCGGTAATGCTCGTG-GTTTTTAGCGGCAATTTTTGATTTAA-
1 CGCCGCTAATGCTCG-GAGTCTTTAGCGGC-GTTTTTGA-TTAAG
* * **
2451132 CGCCGCTAATGTTCGGA-T-TTTAGCAGCGTTTTTGAAAAAG
1 CGCCGCTAATGCTCGGAGTCTTTAGCGGCGTTTTTGATTAAG
2451172 CGCCGC
1 CGCCGC
2451178 AAAAGACTTG
Statistics
Matches: 200, Mismatches: 41, Indels: 29
0.74 0.15 0.11
Matches are distributed among these distances:
39 2 0.01
40 16 0.08
41 80 0.40
42 81 0.41
43 18 0.09
44 1 0.00
45 2 0.01
ACGTcount: A:0.18, C:0.19, G:0.28, T:0.35
Consensus pattern (42 bp):
CGCCGCTAATGCTCGGAGTCTTTAGCGGCGTTTTTGATTAAG
Found at i:2451080 original size:42 final size:41
Alignment explanation
Indices: 2450882--2451166 Score: 193
Period size: 41 Copynumber: 6.9 Consensus size: 41
2450872 TTTGGAATAT
* * * * *
2450882 CGCCTCTAATGGTCGGGG-TTTTGGCGGCATTTTTTATTAAG
1 CGCCGCTAATGCTCGGGGTTTTTAGCGGCGTTTTTGATT-AG
** ** * * *
2450923 CGCCGCTAATAATTAGGG-TTTTAGCGGCGTTTATGGTCAAG
1 CGCCGCTAATGCTCGGGGTTTTTAGCGGCGTTTTTGAT-TAG
* * * * *
2450964 CGCTGCTATTGCTCAGGGTATTTAGCGGCGTTTATGATTAAG
1 CGCCGCTAATGCTCGGGGTTTTTAGCGGCGTTTTTGATT-AG
** * *
2451006 CGCCGCTAATGC-CGTAGTCTTTAGCGGCGTTTTTGATGTTG
1 CGCCGCTAATGCTCGGGGTTTTTAGCGGCGTTTTTGAT-TAG
*
2451047 CGCCGCTAATGCTCGGGGTTTTTAGCGGCGTTTTTGGTATAG
1 CGCCGCTAATGCTCGGGGTTTTTAGCGGCGTTTTTGAT-TAG
** * * * *
2451089 CATCGGTAATGCTCGTGGTTTTTAGCGGCAATTTTTGATTTAA
1 CGCCGCTAATGCTCGGGGTTTTTAGCGGC-GTTTTTGA-TTAG
* * *
2451132 CGCCGCTAATGTTC--GGATTTTAGCAGCGTTTTTGA
1 CGCCGCTAATGCTCGGGGTTTTTAGCGGCGTTTTTGA
2451167 AAAAGCGCCG
Statistics
Matches: 190, Mismatches: 47, Indels: 15
0.75 0.19 0.06
Matches are distributed among these distances:
40 7 0.04
41 86 0.45
42 78 0.41
43 18 0.09
44 1 0.01
ACGTcount: A:0.17, C:0.18, G:0.28, T:0.37
Consensus pattern (41 bp):
CGCCGCTAATGCTCGGGGTTTTTAGCGGCGTTTTTGATTAG
Found at i:2451099 original size:83 final size:84
Alignment explanation
Indices: 2450962--2451166 Score: 204
Period size: 83 Copynumber: 2.5 Consensus size: 84
2450952 TTTATGGTCA
* * * * *
2450962 AGCGCTGCTATTGCTCAGGGTATTTAGCGGCGTTTATGATTAAGCGCCGCTAATGC-CGTAGTCT
1 AGCGCCGCTAATGCTC-GGGTTTTTAGCGGCGTTTTTGATTAAGCACCGCTAATGCTCGTAGTCT
*
2451026 TTAGCGGC-GTTTTTGATGTT
65 TTAGCGGCAATTTTTGAT-TT
* * * * *
2451046 -GCGCCGCTAATGCTCGGGGTTTTTAGCGGCGTTTTTG-GTATAGCATCGGTAATGCTCGTGGTT
1 AGCGCCGCTAATGCTC-GGGTTTTTAGCGGCGTTTTTGATTA-AGCACCGCTAATGCTCGTAGTC
2451109 TTTAGCGGCAATTTTTGATTT
64 TTTAGCGGCAATTTTTGATTT
* * * *
2451130 AACGCCGCTAATGTTC-GGATTTTAGCAGCGTTTTTGA
1 AGCGCCGCTAATGCTCGGGTTTTTAGCGGCGTTTTTGA
2451167 AAAAGCGCCG
Statistics
Matches: 100, Mismatches: 16, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
82 2 0.02
83 61 0.61
84 16 0.16
85 21 0.21
ACGTcount: A:0.17, C:0.18, G:0.28, T:0.37
Consensus pattern (84 bp):
AGCGCCGCTAATGCTCGGGTTTTTAGCGGCGTTTTTGATTAAGCACCGCTAATGCTCGTAGTCTT
TAGCGGCAATTTTTGATTT
Found at i:2452942 original size:31 final size:32
Alignment explanation
Indices: 2452907--2452967 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
2452897 AGAACTGTGC
* *
2452907 ATTAAAGC-TTAATTAAACGGCGCCGTTTCGG
1 ATTAAAACTTTAATTAAACGACGCCGTTTCGG
*
2452938 ATTAAAACTTTAATTAAACGACGTCGTTTC
1 ATTAAAACTTTAATTAAACGACGCCGTTTC
2452968 TGTACACGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 7 0.27
32 19 0.73
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (32 bp):
ATTAAAACTTTAATTAAACGACGCCGTTTCGG
Found at i:2453086 original size:14 final size:15
Alignment explanation
Indices: 2453051--2453080 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2453041 GTCATGTTCT
*
2453051 AAACAAAAGGGAAAA
1 AAACAAAAGAGAAAA
2453066 AAACAAAAGAGAAAA
1 AAACAAAAGAGAAAA
2453081 TACAAAGAAA
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:0.77, C:0.07, G:0.17, T:0.00
Consensus pattern (15 bp):
AAACAAAAGAGAAAA
Found at i:2454689 original size:31 final size:33
Alignment explanation
Indices: 2454642--2454716 Score: 84
Period size: 35 Copynumber: 2.3 Consensus size: 33
2454632 ATTTTTAAGT
2454642 ATATATTACACTAC-T-TACACTACTTACTGAA
1 ATATATTACACTACTTATACACTACTTACTGAA
* *
2454673 ATATATTACA-TAACTTAAATACATTACTTACTTAA
1 ATATATTACACT-ACTT--ATACACTACTTACTGAA
2454708 ATATATTAC
1 ATATATTAC
2454717 TTAAATACAT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
30 1 0.03
31 12 0.32
32 1 0.03
35 23 0.62
ACGTcount: A:0.43, C:0.17, G:0.01, T:0.39
Consensus pattern (33 bp):
ATATATTACACTACTTATACACTACTTACTGAA
Found at i:2454695 original size:13 final size:13
Alignment explanation
Indices: 2454679--2454745 Score: 62
Period size: 13 Copynumber: 4.8 Consensus size: 13
2454669 TGAAATATAT
2454679 TACATAACTTAAA
1 TACATAACTTAAA
2454692 TACATTACTTACTTAAA
1 TACA-TA---ACTTAAA
* *
2454709 TATATTACTTAAA
1 TACATAACTTAAA
*
2454722 TACATGACTTAAA
1 TACATAACTTAAA
*
2454735 TACATGACTTA
1 TACATAACTTA
2454746 CTAAAATTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
13 33 0.72
14 2 0.04
16 1 0.02
17 10 0.22
ACGTcount: A:0.45, C:0.15, G:0.03, T:0.37
Consensus pattern (13 bp):
TACATAACTTAAA
Found at i:2454707 original size:17 final size:17
Alignment explanation
Indices: 2454657--2454719 Score: 72
Period size: 17 Copynumber: 3.6 Consensus size: 17
2454647 TTACACTACT
* *
2454657 TACACTACTTACTGAAA
1 TACATTACTTACTTAAA
* *
2454674 TATATTACATAACTTAAA
1 TACATTAC-TTACTTAAA
2454692 TACATTACTTACTTAAA
1 TACATTACTTACTTAAA
*
2454709 TATATTACTTA
1 TACATTACTTA
2454720 AATACATGAC
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
17 24 0.63
18 14 0.37
ACGTcount: A:0.43, C:0.16, G:0.02, T:0.40
Consensus pattern (17 bp):
TACATTACTTACTTAAA
Found at i:2454769 original size:43 final size:45
Alignment explanation
Indices: 2454673--2454798 Score: 117
Period size: 43 Copynumber: 3.0 Consensus size: 45
2454663 ACTTACTGAA
*
2454673 ATATATTACATAACTTAAATACATTACTTACTTAAATATATTACT
1 ATATATTACATAACTTAAATACATGACTTACTTAAATATATTACT
* * *
2454718 -TA-AATACATGACTTAAATACATGACTTAC-TAAA-AT-TTAAGT
1 ATATATTACATAACTTAAATACATGACTTACTTAAATATATT-ACT
* * *
2454759 ATATATTACATTAC-T---TACATTACTTACTAAAATATATTAC
1 ATATATTACATAACTTAAATACATGACTTACTTAAATATATTAC
2454799 ATTACTTAAA
Statistics
Matches: 66, Mismatches: 9, Indels: 16
0.73 0.10 0.18
Matches are distributed among these distances:
39 11 0.17
40 5 0.08
41 7 0.11
42 9 0.14
43 32 0.48
44 2 0.03
ACGTcount: A:0.44, C:0.13, G:0.02, T:0.40
Consensus pattern (45 bp):
ATATATTACATAACTTAAATACATGACTTACTTAAATATATTACT
Found at i:2454822 original size:26 final size:26
Alignment explanation
Indices: 2454695--2454822 Score: 69
Period size: 26 Copynumber: 5.1 Consensus size: 26
2454685 ACTTAAATAC
2454695 ATTAC-TTACTTAAATATATTAC-TT
1 ATTACATTACTTAAATATATTACATT
* * * *
2454719 AAATACATGACTTAAATACATGAC-TT
1 -ATTACATTACTTAAATATATTACATT
* * *
2454745 ACTA-A-AATTTAAGTATATATTACATT
1 ATTACATTACTTAA--ATATATTACATT
*
2454771 ACTTACATTACTT-ACTA-A--A-ATAT
1 A-TTACATTACTTAAATATATTACAT-T
2454794 ATTACATTACTTAAATATATTACATT
1 ATTACATTACTTAAATATATTACATT
2454820 ATT
1 ATT
2454823 TAAAATTTAT
Statistics
Matches: 76, Mismatches: 14, Indels: 25
0.66 0.12 0.22
Matches are distributed among these distances:
22 13 0.17
23 11 0.14
24 2 0.03
25 15 0.20
26 26 0.34
27 4 0.05
28 2 0.03
29 3 0.04
ACGTcount: A:0.43, C:0.12, G:0.02, T:0.42
Consensus pattern (26 bp):
ATTACATTACTTAAATATATTACATT
Found at i:2454825 original size:18 final size:18
Alignment explanation
Indices: 2454665--2454826 Score: 78
Period size: 18 Copynumber: 8.5 Consensus size: 18
2454655 CTTACACTAC
*
2454665 TTACTGAAATATATTACA
1 TTACTTAAATATATTACA
* *
2454683 TAACTTAAATACATTAC-
1 TTACTTAAATATATTACA
2454700 TTACTTAAATATATTACTTAAA
1 TTACTTAAATATATTAC----A
* *
2454722 TACATGACTTAAATACATGAC-
1 T---T-ACTTAAATATATTACA
* * *
2454743 TTACTAAAATTTAAGTATATA
1 TTACTTAAATAT-A-T-TACA
** *
2454764 TTACATTACTTACATTAC-
1 TTAC-TTAAATATATTACA
*
2454782 TTACTAAAATATATTACA
1 TTACTTAAATATATTACA
2454800 TTACTTAAATATATTACA
1 TTACTTAAATATATTACA
*
2454818 TTATTTAAA
1 TTACTTAAA
2454827 ATTTATATAC
Statistics
Matches: 105, Mismatches: 24, Indels: 30
0.66 0.15 0.19
Matches are distributed among these distances:
17 31 0.30
18 45 0.43
19 3 0.03
20 2 0.02
21 6 0.06
22 4 0.04
25 1 0.01
26 13 0.12
ACGTcount: A:0.44, C:0.12, G:0.02, T:0.41
Consensus pattern (18 bp):
TTACTTAAATATATTACA
Found at i:2460705 original size:21 final size:21
Alignment explanation
Indices: 2460679--2460771 Score: 114
Period size: 21 Copynumber: 4.4 Consensus size: 21
2460669 CTACAACTTA
*
2460679 AAGCAGAGGCAACAGCGAGGG
1 AAGCAGAGGCAACAGCGAGAG
* * *
2460700 AAGCAGAGGCAGCAGTGAGGG
1 AAGCAGAGGCAACAGCGAGAG
* *
2460721 AAGCAGAGGCAGCATCGAGAG
1 AAGCAGAGGCAACAGCGAGAG
*
2460742 AAGCAGAGGCAACAACGAGAG
1 AAGCAGAGGCAACAGCGAGAG
*
2460763 AAGCTGAGG
1 AAGCAGAGG
2460772 TTCAAAGAAA
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 64 1.00
ACGTcount: A:0.39, C:0.17, G:0.41, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCAACAGCGAGAG
Found at i:2462148 original size:15 final size:14
Alignment explanation
Indices: 2462128--2462178 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 14
2462118 ATATAGTAAT
*
2462128 AATAATAAGTATATA
1 AATAATAAGGATA-A
*
2462143 AATAATAAGGGTAA
1 AATAATAAGGATAA
2462157 AATAATAACGG-TAA
1 AATAATAA-GGATAA
2462171 TAATAATA
1 -AATAATA
2462179 TTAAATTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
14 12 0.38
15 20 0.62
ACGTcount: A:0.59, C:0.02, G:0.12, T:0.27
Consensus pattern (14 bp):
AATAATAAGGATAA
Found at i:2464298 original size:126 final size:127
Alignment explanation
Indices: 2464071--2464325 Score: 494
Period size: 126 Copynumber: 2.0 Consensus size: 127
2464061 AATAGGATTT
2464071 CTAATATGATTAAGGTAGATTATTAATGATTTGTAACCCTATATACAATTATACTATTATAATGT
1 CTAATATGATTAAGGTAGATTATTAATGATTTGTAACCCTATATACAATTATACTATTATAATGT
*
2464136 ACATTTTTTTATATTAATGATGTCGAAACCATTTTTTTGAAAACAAAAATAAAAGTTATCGA
66 ACATTTTTTTATATTAATGATGTCGAAACCAATTTTTTGAAAACAAAAATAAAAGTTATCGA
2464198 CTAATATGA-TAAGGTAGATTATTAATGATTTGTAACCCTATATACAATTATACTATTATAATGT
1 CTAATATGATTAAGGTAGATTATTAATGATTTGTAACCCTATATACAATTATACTATTATAATGT
2464262 ACATTTTTTTATATTAATGATGTCGAAACCAATTTTTTGAAAACAAAAATAAAAGTTATCGA
66 ACATTTTTTTATATTAATGATGTCGAAACCAATTTTTTGAAAACAAAAATAAAAGTTATCGA
2464324 CT
1 CT
2464326 TTAAAAACAA
Statistics
Matches: 127, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
126 118 0.93
127 9 0.07
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (127 bp):
CTAATATGATTAAGGTAGATTATTAATGATTTGTAACCCTATATACAATTATACTATTATAATGT
ACATTTTTTTATATTAATGATGTCGAAACCAATTTTTTGAAAACAAAAATAAAAGTTATCGA
Found at i:2465219 original size:17 final size:18
Alignment explanation
Indices: 2465197--2465230 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2465187 ATGGATTATA
2465197 AAATATT-GAAAATGTAT
1 AAATATTAGAAAATGTAT
*
2465214 AAATATTATAAAATGTA
1 AAATATTAGAAAATGTA
2465231 AATATATGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.35
Consensus pattern (18 bp):
AAATATTAGAAAATGTAT
Found at i:2465371 original size:3 final size:3
Alignment explanation
Indices: 2465363--2465416 Score: 54
Period size: 3 Copynumber: 17.0 Consensus size: 3
2465353 ATTAAAATGG
** *
2465363 TAA TAA TAA CCA TAA TAA TAA TAA TAAA TAC TAA TAA TAA TACA GTAA
1 TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TA-A -TAA
2465411 TAA TAA
1 TAA TAA
2465417 CAATTTAACA
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
3 35 0.83
4 5 0.12
5 2 0.05
ACGTcount: A:0.61, C:0.07, G:0.02, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:2466975 original size:263 final size:264
Alignment explanation
Indices: 2466467--2467452 Score: 1510
Period size: 263 Copynumber: 3.7 Consensus size: 264
2466457 CTTCTGTCTG
* ** * * * * * * *
2466467 CTCCACTGCAACTTCAGGGAGGTAAAATCTGCTATCTTTGACCTGCTCCACTACTGCTTGGGGAG
1 CTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTACTCCACTAATGCCTAGGGAG
* * ***
2466532 ACAAGATCTGAAATCTTAAATATATTCCACTGCTGTCCAGGGAGATAGAATTACTGGCTTCAATG
66 ATAAGATCTGAAATCTTCAATATATTCCACTGCCAACCAGGGAGATAGAATTACTGGCTTCAATG
* * **
2466597 TACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTTAATCTGCTCCACTACTGCTTAGGG
131 TACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTACTGCTTAGGG
* * ***
2466662 AGATAAGATCTGTAATCGTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTAGCTTCAA
196 AGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTACTAGCTTCAA
2466727 TGTA
261 TGTA
* *
2466731 CTCCACTGTAACCATAGGGAGGTAAAATCTGCCATCTTCGATCTACTCCACTACTGCCTAGGGAG
1 CTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTACTCCACTAATGCCTAGGGAG
* *
2466796 ATAAGATCTGAAATCTTCAATATATTCCACTGCCAACCAGGGAGATAGAATTAC-GACTTTAATG
66 ATAAGATCTGAAATCTTCAATATATTCCACTGCCAACCAGGGAGATAGAATTACTGGCTTCAATG
* *
2466860 TACTCCACTGTAACCACAGGGAGGTAAAATCTGTCATCTTCGATCTGCTCCACTACCGCTTAGGG
131 TACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTACTGCTTAGGG
* * *
2466925 AGATAAGATCTGAAATCTTCAATCTATTCTACTGCCAACCAGGGAGATAGAATTACGA-CTTTAA
196 AGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTACTAGCTTCAA
2466989 TGTA
261 TGTA
* * **
2466993 CTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTACTCTACTAATGCCTACAGAG
1 CTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTACTCCACTAATGCCTAGGGAG
* * *
2467058 ATAAGATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTGCTGGCTTCAACG
66 ATAAGATCTGAAATCTTCAATATATTCCACTGCCAACCAGGGAGATAGAATTACTGGCTTCAATG
* *
2467123 TACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCAC-AATGCCTAGGG
131 TACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTACTGCTTAGGG
*
2467187 AGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTACTGGCTTCAA
196 AGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTACTAGCTTCAA
2467252 TGTA
261 TGTA
* *
2467256 CTCCACTGTAACCACAGGGAGATAAAATCTGCCATCTTCGATCTGCTCCACTAATGCCTAGGGAG
1 CTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTACTCCACTAATGCCTAGGGAG
*
2467321 ATAAGATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTACTGGCTTCAATG
66 ATAAGATCTGAAATCTTCAATATATTCCACTGCCAACCAGGGAGATAGAATTACTGGCTTCAATG
* * *
2467386 TACTCCACTGTAACCACAGGGAGATAAAATCTGCCATCTTCGATCTGCTCCACTAATGCCTAGGG
131 TACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTACTGCTTAGGG
2467451 AG
196 AG
2467453 GTAAAATTCG
Statistics
Matches: 660, Mismatches: 59, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
262 183 0.28
263 360 0.55
264 117 0.18
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.27
Consensus pattern (264 bp):
CTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTACTCCACTAATGCCTAGGGAG
ATAAGATCTGAAATCTTCAATATATTCCACTGCCAACCAGGGAGATAGAATTACTGGCTTCAATG
TACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTACTGCTTAGGG
AGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTACTAGCTTCAA
TGTA
Found at i:2467451 original size:44 final size:42
Alignment explanation
Indices: 2466589--2467527 Score: 337
Period size: 44 Copynumber: 21.4 Consensus size: 42
2466579 GAATTACTGG
* * *
2466589 CTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCAT
1 CTTCAATCTACTCCAC--TAACCT-AGGGAGATAAAATCTGCCAT
* * * **
2466634 CTTTAATCTGCTCCACT-ACTGCTTAGGGAGATAAGATCTGTAAT
1 CTTCAATCTACTCCACTAAC--C-TAGGGAGATAAAATCTGCCAT
* * ** * * * * *
2466678 CGTCAATCTATTCCACTGCTGCCCAGGGAGATAGAAT-TACTAG
1 CTTCAATCTACTCCACT--AACCTAGGGAGATAAAATCTGCCAT
* *
2466721 CTTCAATGTACTCCACTGTAACCATAGGGAGGTAAAATCTGCCAT
1 CTTCAATCTACTCCAC--TAACC-TAGGGAGATAAAATCTGCCAT
* * * **
2466766 CTTCGATCTACTCCACTACTGCCTAGGGAGATAAGATCTGAAAT
1 CTTCAATCTACTCCACTA--ACCTAGGGAGATAAAATCTGCCAT
* * * * *
2466810 CTTCAATATATTCCACTGCCAACC-AGGGAGATAGAAT-TACGA-
1 CTTCAATCTACTCCACT---AACCTAGGGAGATAAAATCTGCCAT
* * * * *
2466852 CTTTAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGTCAT
1 CTTCAATCTACTCCAC--TAACC-TAGGGAGATAAAATCTGCCAT
* * * * **
2466897 CTTCGATCTGCTCCACTACCGCTTAGGGAGATAAGATCTGAAAT
1 CTTCAATCTACTCCACTAAC-C-TAGGGAGATAAAATCTGCCAT
* * * * *
2466941 CTTCAATCTATTCTACTGCCAACC-AGGGAGATAGAAT-TACGA-
1 CTTCAATCTACTCCACT---AACCTAGGGAGATAAAATCTGCCAT
* * * *
2466983 CTTTAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCAT
1 CTTCAATCTACTCCAC--TAACC-TAGGGAGATAAAATCTGCCAT
** * ** * **
2467028 CTTTGATCTACTCTACTAATGCCTACAGAGATAAGATCTGAAAT
1 CTTCAATCTACTCCACTAA--CCTAGGGAGATAAAATCTGCCAT
* * ***
2467072 CTTCAATCTATTCCACTGCCAACC-AGGGAGATAGAAT-TGCTGG
1 CTTCAATCTACTCCACT---AACCTAGGGAGATAAAATCTGCCAT
* *
2467115 CTTCAA-CGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCAT
1 CTTCAATC-TACTCCAC--TAACC-TAGGGAGATAAAATCTGCCAT
* * * **
2467160 CTTCGATCTGCTCCAC-AATGCCTAGGGAGATAAGATCTGAAAT
1 CTTCAATCTACTCCACTAA--CCTAGGGAGATAAAATCTGCCAT
* * * ***
2467203 CTTCAATCTATTCCACTGCCAACC-AGGGAGATAGAAT-TACTGG
1 CTTCAATCTACTCCACT---AACCTAGGGAGATAAAATCTGCCAT
* *
2467246 CTTCAATGTACTCCACTGTAACCACAGGGAGATAAAATCTGCCAT
1 CTTCAATCTACTCCAC--TAACC-TAGGGAGATAAAATCTGCCAT
* * * **
2467291 CTTCGATCTGCTCCACTAATGCCTAGGGAGATAAGATCTGAAAT
1 CTTCAATCTACTCCACTAA--CCTAGGGAGATAAAATCTGCCAT
* * * ***
2467335 CTTCAATCTATTCCACTGCCAACC-AGGGAGATAGAAT-TACTGG
1 CTTCAATCTACTCCACT---AACCTAGGGAGATAAAATCTGCCAT
* *
2467378 CTTCAATGTACTCCACTGTAACCACAGGGAGATAAAATCTGCCAT
1 CTTCAATCTACTCCAC--TAACC-TAGGGAGATAAAATCTGCCAT
* * *
2467423 CTTCGATCTGCTCCACTAATGCCTAGGGAGGTAAAAT-TCGCCAT
1 CTTCAATCTACTCCACTAA--CCTAGGGAGATAAAATCT-GCCAT
* * * * * **
2467467 CTTCGATCTGCTCCACTACCGCTTAAGGAGATAAGATCTGAAAT
1 CTTCAATCTACTCCACTAAC-C-TAGGGAGATAAAATCTGCCAT
*
2467511 CTTCAATCTATTCCACT
1 CTTCAATCTACTCCACT
2467528 GTGTTCTCTG
Statistics
Matches: 650, Mismatches: 174, Indels: 141
0.67 0.18 0.15
Matches are distributed among these distances:
41 8 0.01
42 43 0.07
43 134 0.21
44 330 0.51
45 123 0.19
46 2 0.00
47 10 0.02
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (42 bp):
CTTCAATCTACTCCACTAACCTAGGGAGATAAAATCTGCCAT
Found at i:2467499 original size:132 final size:132
Alignment explanation
Indices: 2466467--2467452 Score: 1510
Period size: 132 Copynumber: 7.5 Consensus size: 132
2466457 CTTCTGTCTG
* ** * * * * * *
2466467 CTCCACTGCAACTTCAGGGAGGTAAAATCTGCTATCTTTGACCTGCTCCACTACTGCTTGGGGAG
1 CTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTAATGCCTAGGGAG
* * * ***
2466532 ACAAGATCTGAAATCTTAAATATATTCCACTGCTGTCCAGGGAGATAGAATTACTGGCTTCAATG
66 ATAAGATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTACTGGCTTCAATG
2466597 TA
131 TA
* * ** * *
2466599 CTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTTAATCTGCTCCACTACTGCTTAGGGAG
1 CTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTAATGCCTAGGGAG
* * *** *
2466664 ATAAGATCTGTAATCGTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTAGCTTCAATG
66 ATAAGATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTACTGGCTTCAATG
2466729 TA
131 TA
* * *
2466731 CTCCACTGTAACCATAGGGAGGTAAAATCTGCCATCTTCGATCTACTCCACTACTGCCTAGGGAG
1 CTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTAATGCCTAGGGAG
* * *
2466796 ATAAGATCTGAAATCTTCAATATATTCCACTGCCAACCAGGGAGATAGAATTAC-GACTTTAATG
66 ATAAGATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTACTGGCTTCAATG
2466860 TA
131 TA
* ** *
2466862 CTCCACTGTAACCACAGGGAGGTAAAATCTGTCATCTTCGATCTGCTCCACTACCGCTTAGGGAG
1 CTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTAATGCCTAGGGAG
* * *
2466927 ATAAGATCTGAAATCTTCAATCTATTCTACTGCCAACCAGGGAGATAGAATTAC-GACTTTAATG
66 ATAAGATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTACTGGCTTCAATG
2466991 TA
131 TA
* * * **
2466993 CTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTACTCTACTAATGCCTACAGAG
1 CTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTAATGCCTAGGGAG
* *
2467058 ATAAGATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTGCTGGCTTCAACG
66 ATAAGATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTACTGGCTTCAATG
2467123 TA
131 TA
2467125 CTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCAC-AATGCCTAGGGAG
1 CTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTAATGCCTAGGGAG
2467189 ATAAGATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTACTGGCTTCAATG
66 ATAAGATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTACTGGCTTCAATG
2467254 TA
131 TA
*
2467256 CTCCACTGTAACCACAGGGAGATAAAATCTGCCATCTTCGATCTGCTCCACTAATGCCTAGGGAG
1 CTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTAATGCCTAGGGAG
2467321 ATAAGATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTACTGGCTTCAATG
66 ATAAGATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTACTGGCTTCAATG
2467386 TA
131 TA
*
2467388 CTCCACTGTAACCACAGGGAGATAAAATCTGCCATCTTCGATCTGCTCCACTAATGCCTAGGGAG
1 CTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTAATGCCTAGGGAG
2467453 GTAAAATTCG
Statistics
Matches: 793, Mismatches: 59, Indels: 4
0.93 0.07 0.00
Matches are distributed among these distances:
131 367 0.46
132 426 0.54
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.27
Consensus pattern (132 bp):
CTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTAATGCCTAGGGAG
ATAAGATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTACTGGCTTCAATG
TA
Found at i:2476517 original size:3 final size:3
Alignment explanation
Indices: 2476509--2476570 Score: 67
Period size: 3 Copynumber: 21.3 Consensus size: 3
2476499 TAATATATGT
* *
2476509 ATA ATA ATA ATA ATA ATA AT- ATA AT- ATA ATA ATA ATAA ATG CTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA
*
2476553 ATA ATA AT- ATA GTA ATA A
1 ATA ATA ATA ATA ATA ATA A
2476571 ACAATTTAAC
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
2 6 0.12
3 40 0.82
4 3 0.06
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:2476539 original size:16 final size:17
Alignment explanation
Indices: 2476512--2476570 Score: 77
Period size: 16 Copynumber: 3.6 Consensus size: 17
2476502 TATATGTATA
2476512 ATAATAATAATAATAAT
1 ATAATAATAATAATAAT
2476529 ATAAT-ATAATAATAAT
1 ATAATAATAATAATAAT
**
2476545 A-AATGCTAATAATAAT
1 ATAATAATAATAATAAT
*
2476561 ATAGTAATAA
1 ATAATAATAA
2476571 ACAATTTAAC
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
15 3 0.08
16 23 0.64
17 10 0.28
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (17 bp):
ATAATAATAATAATAAT
Found at i:2476556 original size:19 final size:20
Alignment explanation
Indices: 2476508--2476561 Score: 76
Period size: 19 Copynumber: 2.8 Consensus size: 20
2476498 ATAATATATG
2476508 TATAATAATAATAATAATAA
1 TATAATAATAATAATAATAA
2476528 TATAAT-ATAATAATAATAA
1 TATAATAATAATAATAATAA
**
2476547 -ATGCTAATAATAATA
1 TATAATAATAATAATA
2476562 TAGTAATAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
18 3 0.10
19 22 0.71
20 6 0.19
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (20 bp):
TATAATAATAATAATAATAA
Found at i:2478941 original size:22 final size:22
Alignment explanation
Indices: 2478889--2478965 Score: 73
Period size: 22 Copynumber: 3.3 Consensus size: 22
2478879 AAATTTTTTT
* **
2478889 TTTATGTTTTTATATATTTAAAA
1 TTTATTTTTTTATA-ATTTTCAA
2478912 TTTATATTTTTTTATAATTTTCAA
1 -TT-TATTTTTTTATAATTTTCAA
* *
2478936 TTTATTCTTTTAGAATTTTCAA
1 TTTATTTTTTTATAATTTTCAA
2478958 TTTCATTT
1 TTT-ATTT
2478966 AAAAGATTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
22 21 0.47
23 5 0.11
24 8 0.18
25 11 0.24
ACGTcount: A:0.29, C:0.05, G:0.03, T:0.64
Consensus pattern (22 bp):
TTTATTTTTTTATAATTTTCAA
Found at i:2484208 original size:21 final size:18
Alignment explanation
Indices: 2484160--2484209 Score: 55
Period size: 21 Copynumber: 2.6 Consensus size: 18
2484150 TAATGTTTTT
*
2484160 AATTGAATTGTTGGATTC
1 AATTGAATTTTTGGATTC
2484178 AATTCGAATTTTTAGGTATTGC
1 AATT-GAATTTTT-GG-ATT-C
2484200 AATTGAATTT
1 AATTGAATTT
2484210 GAGAAATACG
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 4 0.15
19 7 0.26
20 2 0.07
21 9 0.33
22 5 0.19
ACGTcount: A:0.30, C:0.06, G:0.18, T:0.46
Consensus pattern (18 bp):
AATTGAATTTTTGGATTC
Found at i:2484576 original size:44 final size:46
Alignment explanation
Indices: 2484495--2484583 Score: 130
Period size: 44 Copynumber: 2.0 Consensus size: 46
2484485 AGTTCGCTGT
*
2484495 AATGGAATAGAGGTCTAATAGGTAATTCTTTTGTTTGGTTGAATGA
1 AATGGAATAGAGGTCTAATAGGTAATTCTTGTGTTTGGTTGAATGA
*
2484541 AATGGAATAGAGG-CGTGAT-GGT-ATTCTTGTGTTTGGTTGAATG
1 AATGGAATAGAGGTC-TAATAGGTAATTCTTGTGTTTGGTTGAATG
2484584 GAATAGAGAC
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
44 20 0.50
45 4 0.10
46 16 0.40
ACGTcount: A:0.27, C:0.04, G:0.30, T:0.38
Consensus pattern (46 bp):
AATGGAATAGAGGTCTAATAGGTAATTCTTGTGTTTGGTTGAATGA
Found at i:2484719 original size:22 final size:24
Alignment explanation
Indices: 2484674--2484720 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 24
2484664 ATTGTTATTT
2484674 TATATGAATTTACTAAAATCATAA
1 TATATGAATTTACTAAAATCATAA
2484698 TATAT-AATATTA-TAAAAT-ATAA
1 TATATGAAT-TTACTAAAATCATAA
2484720 T
1 T
2484721 TTAAAATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 5 0.23
23 9 0.41
24 8 0.36
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.40
Consensus pattern (24 bp):
TATATGAATTTACTAAAATCATAA
Found at i:2484741 original size:26 final size:25
Alignment explanation
Indices: 2484701--2484759 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 25
2484691 ATCATAATAT
2484701 ATAATATTATAAAATATAATTTAAA
1 ATAATATTATAAAATATAATTTAAA
*
2484726 ATAATTATTATTAAATATAATTTAATA
1 ATAA-TATTATAAAATATAATTTAA-A
*
2484753 AAAATAT
1 ATAATAT
2484760 AGAATTTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
25 4 0.13
26 22 0.73
27 4 0.13
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (25 bp):
ATAATATTATAAAATATAATTTAAA
Found at i:2484757 original size:16 final size:17
Alignment explanation
Indices: 2484738--2484773 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
2484728 AATTATTATT
2484738 AAATAT-AATTTAATAA
1 AAATATAAATTTAATAA
2484754 AAATATAGAATTTAATAA
1 AAATATA-AATTTAATAA
2484772 AA
1 AA
2484774 TTCAATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.33
18 12 0.67
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (17 bp):
AAATATAAATTTAATAA
Found at i:2488167 original size:17 final size:18
Alignment explanation
Indices: 2488141--2488184 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
2488131 AATGGAGAAC
2488141 AGAAAA-AAACGT-GAGA
1 AGAAAAGAAACGTAGAGA
2488157 AGAAAAGAAACGTACGAGA
1 AGAAAAGAAACGTA-GAGA
*
2488176 ATAAAAGAA
1 AGAAAAGAA
2488185 GCAGAAATCG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 6 0.25
17 6 0.25
19 12 0.50
ACGTcount: A:0.64, C:0.07, G:0.23, T:0.07
Consensus pattern (18 bp):
AGAAAAGAAACGTAGAGA
Found at i:2492302 original size:17 final size:18
Alignment explanation
Indices: 2492265--2492304 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
2492255 AAATTTTATT
2492265 TTATAATAATGTAAAATC
1 TTATAATAATGTAAAATC
*
2492283 TTATAATAAT-TAATATC
1 TTATAATAATGTAAAATC
2492300 TTATA
1 TTATA
2492305 TAAACTTGCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (18 bp):
TTATAATAATGTAAAATC
Found at i:2499376 original size:174 final size:174
Alignment explanation
Indices: 2499086--2499569 Score: 731
Period size: 174 Copynumber: 2.8 Consensus size: 174
2499076 AATTTGCATA
* * * * *
2499086 TTTGTTGCTGTGATGATTATATTAAAATTTATGAAAATTTTGTGAATCATCGGCAACTATGTCGG
1 TTTGTTGCTGTGATGATTATATTAGAATTTATGAAAA-TTTATGAAACATCGACAACTATGTCGA
* ** *
2499151 TC-GAGCGGTTACCTGAGCAACAAAATTTGTTCAAATTCTATCGCTTTGTTGATTTATCACATTG
65 TCTGAGCGGTTACCTGAGCAACAAAATTTGTTCAAATTCAATTTCTTTGTTGATTTATTACATTG
2499215 TTTTAGTCGTCTTACAATTA-ATCTTATTGTATGTGAATCTGCAGT
130 TTTTAGTCGTCTTACAA-TACATCTTATTGTATGTGAATCTGCAGT
*
2499260 TTTGTTGCTGTGATGATTATATTAGAATTTATGAAGATTTATGAAACATCGACAACTATGTCGAT
1 TTTGTTGCTGTGATGATTATATTAGAATTTATGAAAATTTATGAAACATCGACAACTATGTCGAT
* *
2499325 CTGAGCGGTTACCTGAGCAACAAAATTTGTTCAAATTCAATTTCCTTGTTGATTTATTACGTT-T
66 CTGAGCGGTTACCTGAGCAACAAAATTTGTTCAAATTCAATTTCTTTGTTGATTTATTACATTGT
** * **
2499389 CTTTAGTCGTCTTATGATACATTTTATTGTATGTGAATCTGTGGT
131 -TTTAGTCGTCTTACAATACATCTTATTGTATGTGAATCTGCAGT
*
2499434 TTTGTTGCTGTGATGATTATATTAGAATTTATGAAAATTTAATGAAACATCGACAACCATGTCGA
1 TTTGTTGCTGTGATGATTATATTAGAATTTATGAAAATTT-ATGAAACATCGACAACTATGTCGA
* *
2499499 TCTGAGCGGTTACCTGAGCAACAAAATTTGTTCAAATTCAGTTTCTTTGTTGATTTATTACTTTG
65 TCTGAGCGGTTACCTGAGCAACAAAATTTGTTCAAATTCAATTTCTTTGTTGATTTATTACATTG
2499564 TTTTAG
130 TTTTAG
2499570 CTGTCTTGTA
Statistics
Matches: 283, Mismatches: 22, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
173 28 0.10
174 165 0.58
175 89 0.31
176 1 0.00
ACGTcount: A:0.28, C:0.13, G:0.18, T:0.42
Consensus pattern (174 bp):
TTTGTTGCTGTGATGATTATATTAGAATTTATGAAAATTTATGAAACATCGACAACTATGTCGAT
CTGAGCGGTTACCTGAGCAACAAAATTTGTTCAAATTCAATTTCTTTGTTGATTTATTACATTGT
TTTAGTCGTCTTACAATACATCTTATTGTATGTGAATCTGCAGT
Found at i:2501214 original size:26 final size:27
Alignment explanation
Indices: 2501168--2501220 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
2501158 ATATTTAACT
* *
2501168 TTTTAATTTTACTCGATTTGACTTGAA
1 TTTTAATTTTACTCCACTTGACTTGAA
*
2501195 TTTT-ATTTTACTCCACTTGATTTGAA
1 TTTTAATTTTACTCCACTTGACTTGAA
2501221 AAAAAATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 19 0.83
27 4 0.17
ACGTcount: A:0.25, C:0.13, G:0.09, T:0.53
Consensus pattern (27 bp):
TTTTAATTTTACTCCACTTGACTTGAA
Found at i:2502212 original size:34 final size:35
Alignment explanation
Indices: 2502174--2502243 Score: 90
Period size: 34 Copynumber: 2.0 Consensus size: 35
2502164 AGTCCCTTCT
* *
2502174 AACATGCAATACAACTAA-TACAAACAGATA-ATCA
1 AACATGAAATACAA-AAACTACAAACAGATATATCA
*
2502208 AACATGAAATACAAAAACTGCAAACAGATATATCA
1 AACATGAAATACAAAAACTACAAACAGATATATCA
2502243 A
1 A
2502244 TTCCTTCCTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
33 2 0.06
34 24 0.77
35 5 0.16
ACGTcount: A:0.57, C:0.19, G:0.07, T:0.17
Consensus pattern (35 bp):
AACATGAAATACAAAAACTACAAACAGATATATCA
Found at i:2504307 original size:32 final size:32
Alignment explanation
Indices: 2504266--2504330 Score: 114
Period size: 32 Copynumber: 2.0 Consensus size: 32
2504256 ATATACATAC
2504266 ATATATGGTAA-GATATTGAAACAAAATAGGAA
1 ATATATGGTAAGGA-ATTGAAACAAAATAGGAA
2504298 ATATATGGTAAGGAATTGAAACAAAATAGGAA
1 ATATATGGTAAGGAATTGAAACAAAATAGGAA
2504330 A
1 A
2504331 CATAGGTGTC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 30 0.94
33 2 0.06
ACGTcount: A:0.54, C:0.03, G:0.20, T:0.23
Consensus pattern (32 bp):
ATATATGGTAAGGAATTGAAACAAAATAGGAA
Found at i:2505477 original size:12 final size:11
Alignment explanation
Indices: 2505460--2505492 Score: 50
Period size: 10 Copynumber: 3.0 Consensus size: 11
2505450 AACAAATCCT
2505460 CTCTCATATTTC
1 CTCTCA-ATTTC
2505472 CTCTCAA-TTC
1 CTCTCAATTTC
2505482 CTCTCAATTTC
1 CTCTCAATTTC
2505493 TTTCCAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 10 0.50
11 4 0.20
12 6 0.30
ACGTcount: A:0.18, C:0.36, G:0.00, T:0.45
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:2505507 original size:22 final size:22
Alignment explanation
Indices: 2505477--2505529 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
2505467 ATTTCCTCTC
*
2505477 AATTCCTCTCAATTTCTTTCCAA
1 AATT-CTCTCAATTTCCTTCCAA
2505500 AATTCTCTCAATTTCCTTCCAA
1 AATTCTCTCAATTTCCTTCCAA
2505522 AATTCTCT
1 AATTCTCT
2505530 TAAATCCATA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 25 0.86
23 4 0.14
ACGTcount: A:0.26, C:0.30, G:0.00, T:0.43
Consensus pattern (22 bp):
AATTCTCTCAATTTCCTTCCAA
Found at i:2505568 original size:51 final size:51
Alignment explanation
Indices: 2505504--2506093 Score: 1180
Period size: 51 Copynumber: 11.6 Consensus size: 51
2505494 TTCCAAAATT
2505504 CTCTCAATTTCCTTCCAAAATTCTCTTAAATCCATATTTAATTTCAATTTC
1 CTCTCAATTTCCTTCCAAAATTCTCTTAAATCCATATTTAATTTCAATTTC
2505555 CTCTCAATTTCCTTCCAAAATTCTCTTAAATCCATATTTAATTTCAATTTC
1 CTCTCAATTTCCTTCCAAAATTCTCTTAAATCCATATTTAATTTCAATTTC
2505606 CTCTCAATTTCCTTCCAAAATTCTCTTAAATCCATATTTAATTTCAATTTC
1 CTCTCAATTTCCTTCCAAAATTCTCTTAAATCCATATTTAATTTCAATTTC
2505657 CTCTCAATTTCCTTCCAAAATTCTCTTAAATCCATATTTAATTTCAATTTC
1 CTCTCAATTTCCTTCCAAAATTCTCTTAAATCCATATTTAATTTCAATTTC
2505708 CTCTCAATTTCCTTCCAAAATTCTCTTAAATCCATATTTAATTTCAATTTC
1 CTCTCAATTTCCTTCCAAAATTCTCTTAAATCCATATTTAATTTCAATTTC
2505759 CTCTCAATTTCCTTCCAAAATTCTCTTAAATCCATATTTAATTTCAATTTC
1 CTCTCAATTTCCTTCCAAAATTCTCTTAAATCCATATTTAATTTCAATTTC
2505810 CTCTCAATTTCCTTCCAAAATTCTCTTAAATCCATATTTAATTTCAATTTC
1 CTCTCAATTTCCTTCCAAAATTCTCTTAAATCCATATTTAATTTCAATTTC
2505861 CTCTCAATTTCCTTCCAAAATTCTCTTAAATCCATATTTAATTTCAATTTC
1 CTCTCAATTTCCTTCCAAAATTCTCTTAAATCCATATTTAATTTCAATTTC
2505912 CTCTCAATTTCCTTCCAAAATTCTCTTAAATCCATATTTAATTTCAATTTC
1 CTCTCAATTTCCTTCCAAAATTCTCTTAAATCCATATTTAATTTCAATTTC
2505963 CTCTCAATTTCCTTCCAAAATTCTCTTAAATCCATATTTAATTTCAATTTC
1 CTCTCAATTTCCTTCCAAAATTCTCTTAAATCCATATTTAATTTCAATTTC
2506014 CTCTCAATTTCCTTCCAAAATTCTCTTAAATCCATATTTAATTTCAATTTC
1 CTCTCAATTTCCTTCCAAAATTCTCTTAAATCCATATTTAATTTCAATTTC
2506065 CTCTCAATTTCCTTCCAAAATTCTCTTAA
1 CTCTCAATTTCCTTCCAAAATTCTCTTAA
2506094 TTTCCTTCCA
Statistics
Matches: 539, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 539 1.00
ACGTcount: A:0.29, C:0.26, G:0.00, T:0.45
Consensus pattern (51 bp):
CTCTCAATTTCCTTCCAAAATTCTCTTAAATCCATATTTAATTTCAATTTC
Found at i:2506090 original size:22 final size:22
Alignment explanation
Indices: 2506065--2506115 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
2506055 TTTCAATTTC
2506065 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
*
2506087 CTCTTAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
2506109 CTCTCAA
1 CTCTCAA
2506116 ATCCATATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.27, C:0.31, G:0.00, T:0.41
Consensus pattern (22 bp):
CTCTCAATTTCCTTCCAAAATT
Found at i:2506138 original size:73 final size:73
Alignment explanation
Indices: 2506014--2506151 Score: 249
Period size: 73 Copynumber: 1.9 Consensus size: 73
2506004 TTTCAATTTC
*
2506014 CTCTCAATTTCCTTCCAAAATTCTCTTAAATCCATATTTAATTTCAATTTCCTCTCAATTTCCTT
1 CTCTCAATTTCCTTCCAAAATTCTCTCAAATCCATATTTAATTTCAATTTCCTCTCAATTTCCTT
2506079 CCAAAATT
66 CCAAAATT
* *
2506087 CTCTTAATTTCCTTCCAAAATTCTCTCAAATCCATATTTGATTTCAATTTCCTCTCAATTTCCTT
1 CTCTCAATTTCCTTCCAAAATTCTCTCAAATCCATATTTAATTTCAATTTCCTCTCAATTTCCTT
2506152 TTTTAAAATA
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
73 62 1.00
ACGTcount: A:0.27, C:0.28, G:0.01, T:0.45
Consensus pattern (73 bp):
CTCTCAATTTCCTTCCAAAATTCTCTCAAATCCATATTTAATTTCAATTTCCTCTCAATTTCCTT
CCAAAATT
Found at i:2509549 original size:126 final size:124
Alignment explanation
Indices: 2509324--2509603 Score: 461
Period size: 126 Copynumber: 2.2 Consensus size: 124
2509314 CCCAAACATG
* *
2509324 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTACAAATTATTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGA-GGCGCGATTTCACAAATTATTCTCAAATAGCATCATGC
* * *
2509389 TAGAAGCGATTTTATACTATTTGGTCAGAGAAGTCAAAAAAAAAAATATTTCTTACATGAC
65 TAAAAGCGATTTTATACTATTTGGTAAGAAAAGTC-AAAAAAAAAATATTTCTTACATGAC
*
2509450 CTACTGTAGCAAAAGCGCGTCCACGAGGCTGCGATTTCACAAATTCTTCTCAAATAGCATCATGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGC-GCGATTTCACAAATTATTCTCAAATAGCATCATGC
**
2509515 TAAAAGCGATTTTATACTATTTGGTAAGAAAAGTCAAAAAAAATTTATTTCTTACATGAC
65 TAAAAGCGATTTTATACTATTTGGTAAGAAAAGTCAAAAAAAAAATATTTCTTACATGAC
2509575 CTACTGTAGCAAAAGCGCGTCCACGAGGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGC
2509604 NNNNNNNNNN
Statistics
Matches: 145, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
125 55 0.38
126 90 0.62
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.27
Consensus pattern (124 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGCGCGATTTCACAAATTATTCTCAAATAGCATCATGCT
AAAAGCGATTTTATACTATTTGGTAAGAAAAGTCAAAAAAAAAATATTTCTTACATGAC
Found at i:2514243 original size:24 final size:24
Alignment explanation
Indices: 2514211--2514256 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
2514201 TTCAAGTCTA
2514211 CTTGTAATCTTTCAAGTTTTTCTG
1 CTTGTAATCTTTCAAGTTTTTCTG
2514235 CTTGTAATCTTTCAAGTTTTTC
1 CTTGTAATCTTTCAAGTTTTTC
2514257 AGCTACTGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.54
Consensus pattern (24 bp):
CTTGTAATCTTTCAAGTTTTTCTG
Found at i:2528457 original size:12 final size:12
Alignment explanation
Indices: 2528440--2528469 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
2528430 CACCCAAGTC
2528440 GTGAAATAACAA
1 GTGAAATAACAA
2528452 GTGAAATAACAA
1 GTGAAATAACAA
*
2528464 GCGAAA
1 GTGAAA
2528470 GGCTCCTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.57, C:0.10, G:0.20, T:0.13
Consensus pattern (12 bp):
GTGAAATAACAA
Found at i:2529069 original size:16 final size:16
Alignment explanation
Indices: 2529048--2529085 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
2529038 TTTTTGGCTG
*
2529048 GTATAGCGTGGATGGT
1 GTATAGCGTGAATGGT
*
2529064 GTATAGGGTGAATGGT
1 GTATAGCGTGAATGGT
2529080 GTATAG
1 GTATAG
2529086 ACTAATCATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.24, C:0.03, G:0.42, T:0.32
Consensus pattern (16 bp):
GTATAGCGTGAATGGT
Found at i:2530318 original size:23 final size:23
Alignment explanation
Indices: 2530286--2530340 Score: 94
Period size: 23 Copynumber: 2.4 Consensus size: 23
2530276 TCCAAAAAGA
2530286 TTAA-GGATTTCACGATTGGGTT
1 TTAAGGGATTTCACGATTGGGTT
*
2530308 TTAAGGGATTTCACGATTTGGTT
1 TTAAGGGATTTCACGATTGGGTT
2530331 TTAAGGGATT
1 TTAAGGGATT
2530341 AGGGATGTAG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 4 0.13
23 27 0.87
ACGTcount: A:0.24, C:0.07, G:0.27, T:0.42
Consensus pattern (23 bp):
TTAAGGGATTTCACGATTGGGTT
Found at i:2535843 original size:21 final size:20
Alignment explanation
Indices: 2535802--2535845 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
2535792 CACGCTGCAG
* * *
2535802 TTTGAAAATTTGTATCTTTT
1 TTTGAAAAATTCTATATTTT
*
2535822 TTTGAAAAATTCTATATGTT
1 TTTGAAAAATTCTATATTTT
2535842 TTTG
1 TTTG
2535846 GTTTAGCCCC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.27, C:0.05, G:0.11, T:0.57
Consensus pattern (20 bp):
TTTGAAAAATTCTATATTTT
Found at i:2540677 original size:31 final size:31
Alignment explanation
Indices: 2540639--2540743 Score: 97
Period size: 31 Copynumber: 3.4 Consensus size: 31
2540629 TACTCATATT
*
2540639 AATATTAAATTAATAAAACACTATCAAGATA
1 AATATTAAATTAATAAAATACTATCAAGATA
* ** * * *
2540670 AATATTAAATCAAATTTAATA-TCTC-ACATT
1 AATATTAAAT-TAATAAAATACTATCAAGATA
* * *
2540700 AATACTATATTAATAAAATACTATGAAGATA
1 AATATTAAATTAATAAAATACTATCAAGATA
2540731 AATATTAAATTAA
1 AATATTAAATTAA
2540744 ATTTATTAAA
Statistics
Matches: 53, Mismatches: 18, Indels: 6
0.69 0.23 0.08
Matches are distributed among these distances:
29 7 0.13
30 13 0.25
31 27 0.51
32 6 0.11
ACGTcount: A:0.54, C:0.09, G:0.03, T:0.34
Consensus pattern (31 bp):
AATATTAAATTAATAAAATACTATCAAGATA
Found at i:2540715 original size:61 final size:61
Alignment explanation
Indices: 2540631--2540748 Score: 182
Period size: 61 Copynumber: 1.9 Consensus size: 61
2540621 ATTGAAATTA
* *
2540631 CTCATATTAATATTAAATTAATAAAACACTATCAAGATAAATATTAAATCAAATTTAATAT
1 CTCACATTAATACTAAATTAATAAAACACTATCAAGATAAATATTAAATCAAATTTAATAT
* * * *
2540692 CTCACATTAATACTATATTAATAAAATACTATGAAGATAAATATTAAATTAAATTTA
1 CTCACATTAATACTAAATTAATAAAACACTATCAAGATAAATATTAAATCAAATTTA
2540749 TTAAACTAAT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
61 51 1.00
ACGTcount: A:0.52, C:0.09, G:0.03, T:0.36
Consensus pattern (61 bp):
CTCACATTAATACTAAATTAATAAAACACTATCAAGATAAATATTAAATCAAATTTAATAT
Found at i:2551599 original size:17 final size:17
Alignment explanation
Indices: 2551560--2551596 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
2551550 AATAGAAAGA
2551560 TAAATATTAAATTTAAT
1 TAAATATTAAATTTAAT
*
2551577 TTAATATTAAATTT-AT
1 TAAATATTAAATTTAAT
2551593 TAAA
1 TAAA
2551597 ATAATATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TAAATATTAAATTTAAT
Found at i:2552672 original size:17 final size:17
Alignment explanation
Indices: 2552650--2552683 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
2552640 AATTGTGTTA
2552650 GATTAATTACATTTCTT
1 GATTAATTACATTTCTT
2552667 GATTAATTACATTTCTT
1 GATTAATTACATTTCTT
2552684 AACTTAGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.53
Consensus pattern (17 bp):
GATTAATTACATTTCTT
Found at i:2554771 original size:18 final size:19
Alignment explanation
Indices: 2554735--2554777 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
2554725 AGTACATATG
2554735 CTCTTTTTTTTTTCACTTTT
1 CTCTTTTTTTTTT-ACTTTT
2554755 CTCTTTTTTTTTT-CTTTT
1 CTCTTTTTTTTTTACTTTT
2554773 -TCTTT
1 CTCTTT
2554778 CACAAGCATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 5 0.22
18 5 0.22
20 13 0.57
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (19 bp):
CTCTTTTTTTTTTACTTTT
Found at i:2563406 original size:27 final size:28
Alignment explanation
Indices: 2563367--2563426 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 28
2563357 CTTTGTAAAT
*
2563367 TGATTAAATTAATTAGTTATTGTA-TTTG
1 TGATTAAATTAATTAGTTA-TGTAGGTTG
* *
2563395 TGATTTAA-TAATTATTTATGTAGGTTG
1 TGATTAAATTAATTAGTTATGTAGGTTG
2563422 TGATT
1 TGATT
2563427 GAGTTTGTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 4 0.14
27 17 0.61
28 7 0.25
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.53
Consensus pattern (28 bp):
TGATTAAATTAATTAGTTATGTAGGTTG
Done.