Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr12
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: 39383930
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.32
Warning! 780790 characters in sequence are not A, C, G, or T
File 81 of 126
Found at i:24751316 original size:64 final size:64
Alignment explanation
Indices: 24751212--24751411 Score: 251
Period size: 64 Copynumber: 3.1 Consensus size: 64
24751202 GCGATGCTAT
* * * * *
24751212 TGATGGCTTTGTGTCGATTATATTACCGTTACTGATGGCTTTGTGCCGGTCATATTACCGTTAC
1 TGATGGCTTTGTGCCGGTTATATTACCGCTACTGATGGCTTTGTGCCGATCATATTACAGTTAC
* * * *
24751276 TGATGGCTTTATGCCGGTCATATTACCACTACTGACGGCTTTGTGCCGATCATATTACAGTTAC
1 TGATGGCTTTGTGCCGGTTATATTACCGCTACTGATGGCTTTGTGCCGATCATATTACAGTTAC
* * * *
24751340 TGATGG-TTGTGTGCCGGTTATATCACTGCTACTGATGGCTTTGTGCCAATCATATTACTG-TAC
1 TGATGGCTT-TGTGCCGGTTATATTACCGCTACTGATGGCTTTGTGCCGATCATATTACAGTTAC
*
24751403 TTATGGCTT
1 TGATGGCTT
24751412 GTAGCCGTTC
Statistics
Matches: 116, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
63 10 0.09
64 106 0.91
ACGTcount: A:0.19, C:0.20, G:0.23, T:0.39
Consensus pattern (64 bp):
TGATGGCTTTGTGCCGGTTATATTACCGCTACTGATGGCTTTGTGCCGATCATATTACAGTTAC
Found at i:24751380 original size:96 final size:96
Alignment explanation
Indices: 24751216--24751397 Score: 258
Period size: 96 Copynumber: 1.9 Consensus size: 96
24751206 TGCTATTGAT
* * * * *
24751216 GGCTTTGTGTCGATTATATTACCGTTACTGATGGCTTTGTGCCGGTCATATTACCGTTACTGATG
1 GGCTTTGTGCCGATCATATTACAGTTACTGATGGCTTTGTGCCGGTCATATCACCGCTACTGATG
**
24751281 GCTTTATGCCGGTCATATTACCACTACTGAC
66 GCTTTATGCCAATCATATTACCACTACTGAC
* *
24751312 GGCTTTGTGCCGATCATATTACAGTTACTGATGG-TTGTGTGCCGGTTATATCACTGCTACTGAT
1 GGCTTTGTGCCGATCATATTACAGTTACTGATGGCTT-TGTGCCGGTCATATCACCGCTACTGAT
*
24751376 GGCTTTGTGCCAATCATATTAC
65 GGCTTTATGCCAATCATATTAC
24751398 TGTACTTATG
Statistics
Matches: 75, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
95 2 0.03
96 73 0.97
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.37
Consensus pattern (96 bp):
GGCTTTGTGCCGATCATATTACAGTTACTGATGGCTTTGTGCCGGTCATATCACCGCTACTGATG
GCTTTATGCCAATCATATTACCACTACTGAC
Found at i:24753064 original size:15 final size:16
Alignment explanation
Indices: 24753044--24753073 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
24753034 TAGTGCCTTG
24753044 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
24753059 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
24753074 AGCATGCTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:24755072 original size:21 final size:19
Alignment explanation
Indices: 24755044--24755087 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 19
24755034 TGAATAGAAG
24755044 GTTTCTAAATTGATTT-TTAA
1 GTTTCTAAA-T-ATTTCTTAA
24755064 GTTTGCTAAATATTTCTTAA
1 GTTT-CTAAATATTTCTTAA
24755084 GTTT
1 GTTT
24755088 TAATGAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 4 0.18
20 13 0.59
21 5 0.23
ACGTcount: A:0.27, C:0.07, G:0.11, T:0.55
Consensus pattern (19 bp):
GTTTCTAAATATTTCTTAA
Found at i:24758644 original size:27 final size:27
Alignment explanation
Indices: 24758613--24758667 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
24758603 GTGTAAGCTT
* *
24758613 TCTCACACTGTTGTTTTAATATGTGAA
1 TCTCACACCGTTGTTTTAACATGTGAA
*
24758640 TCTCATACCGTTGTTTTAACATGTGAA
1 TCTCACACCGTTGTTTTAACATGTGAA
24758667 T
1 T
24758668 GTGTGCTCTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.25, C:0.16, G:0.15, T:0.44
Consensus pattern (27 bp):
TCTCACACCGTTGTTTTAACATGTGAA
Found at i:24765292 original size:27 final size:27
Alignment explanation
Indices: 24765215--24765699 Score: 378
Period size: 27 Copynumber: 18.1 Consensus size: 27
24765205 TTACACTGTT
* ** *
24765215 ATGACGAAAATACCTTCATAGGATAAA
1 ATGACCAAAATACCCCCATAGGGTAAA
*
24765242 ATAACCAAAATA-CCCCATAGGGTAAA
1 ATGACCAAAATACCCCCATAGGGTAAA
* *
24765268 ATGACCGAAATACCCCCATAAGGTAAA
1 ATGACCAAAATACCCCCATAGGGTAAA
* *
24765295 ATGATCGAAATA-CCCCATAGGGTAAA
1 ATGACCAAAATACCCCCATAGGGTAAA
* * *
24765321 ATAACAAAAATACCCCCATCGGGTAAA
1 ATGACCAAAATACCCCCATAGGGTAAA
* *
24765348 A-GACCAAAATA-TCCCAGTAGAGTAAA
1 ATGACCAAAATACCCCCA-TAGGGTAAA
* * **
24765374 ATGAACGAAATACCCTTATAGGGTAAA
1 ATGACCAAAATACCCCCATAGGGTAAA
* * **
24765401 ATGACCGAAATGCCCTTATAGGGTAAA
1 ATGACCAAAATACCCCCATAGGGTAAA
* * *
24765428 ATAACCGAAATACCCTCATAGGGTAAA
1 ATGACCAAAATACCCCCATAGGGTAAA
* *
24765455 ATGACCAAAATAACCCAATAGGGTAAA
1 ATGACCAAAATACCCCCATAGGGTAAA
* *
24765482 ATGACTAAAATACCCCCACAGGGTAAA
1 ATGACCAAAATACCCCCATAGGGTAAA
* * * **
24765509 AAGACCAAAATACCCTCAAAATGTAAA
1 ATGACCAAAATACCCCCATAGGGTAAA
* * * *
24765536 ATGATCGAAATACCCCTGA-AGGGTCAA
1 ATGACCAAAATACCCC-CATAGGGTAAA
** *
24765563 ATGACCGTAATACCCTCGA-AGGGTAAA
1 ATGACCAAAATACCC-CCATAGGGTAAA
* *
24765590 ATGACCAAAATGCCCCCGA-AGGGTGAA
1 ATGACCAAAATACCCCC-ATAGGGTAAA
* ** * *
24765617 ATGATCGGAATACCCCTGA-AGGGTGAA
1 ATGACCAAAATACCCC-CATAGGGTAAA
* *
24765644 ATGATCAAAATACCCCCGA-AGGGTCAA
1 ATGACCAAAATACCCCC-ATAGGGTAAA
* *
24765671 ATGATCTAAATACCCCC-TAGGGTAAA
1 ATGACCAAAATACCCCCATAGGGTAAA
24765697 ATG
1 ATG
24765700 GCTGTTATAC
Statistics
Matches: 374, Mismatches: 73, Indels: 23
0.80 0.16 0.05
Matches are distributed among these distances:
25 4 0.01
26 69 0.18
27 297 0.79
28 4 0.01
ACGTcount: A:0.44, C:0.21, G:0.18, T:0.18
Consensus pattern (27 bp):
ATGACCAAAATACCCCCATAGGGTAAA
Found at i:24765902 original size:26 final size:26
Alignment explanation
Indices: 24765863--24765917 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
24765853 TGGAGGAAGT
*
24765863 ATACTGTTATTGGCAGCTTTGCAGCG
1 ATACTGTTACTGGCAGCTTTGCAGCG
* *
24765889 ATACTGTTACTGGCAGTTTTGCTGCG
1 ATACTGTTACTGGCAGCTTTGCAGCG
24765915 ATA
1 ATA
24765918 TTGGTGTGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.36
Consensus pattern (26 bp):
ATACTGTTACTGGCAGCTTTGCAGCG
Found at i:24766070 original size:28 final size:28
Alignment explanation
Indices: 24766030--24766139 Score: 168
Period size: 28 Copynumber: 4.0 Consensus size: 28
24766020 ACTGTACTGG
24766030 TTACTGTATTGGGCTAAGGCCCACACTA
1 TTACTGTATTGGGCTAAGGCCCACACTA
* * *
24766058 TTACTATATTGGGCCAAGGCCCACAGTA
1 TTACTGTATTGGGCTAAGGCCCACACTA
*
24766086 TTACTGTATTGGGCTAAGGCCTACACTA
1 TTACTGTATTGGGCTAAGGCCCACACTA
*
24766114 TTACTGTATTGGGCTAATG-CCACACT
1 TTACTGTATTGGGCTAAGGCCCACACT
24766140 GTACTGTTAC
Statistics
Matches: 73, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
27 6 0.08
28 67 0.92
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (28 bp):
TTACTGTATTGGGCTAAGGCCCACACTA
Found at i:24777905 original size:15 final size:15
Alignment explanation
Indices: 24777885--24777919 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
24777875 CCATCCAAAC
24777885 GTTTCAAACTAACTT
1 GTTTCAAACTAACTT
24777900 GTTTCAAACTAACTT
1 GTTTCAAACTAACTT
24777915 GTTTC
1 GTTTC
24777920 CTTCGACAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.29, C:0.20, G:0.09, T:0.43
Consensus pattern (15 bp):
GTTTCAAACTAACTT
Found at i:24780073 original size:54 final size:54
Alignment explanation
Indices: 24779979--24780126 Score: 183
Period size: 54 Copynumber: 2.7 Consensus size: 54
24779969 ATGTCCTAGC
* *
24779979 CCGTGTGCTAGGTCGTGTAACTCAT-TGAATTGCTC-TACACGCCCGTGTACCAGG
1 CCGTGTGCTAGGTCGTGTAACTC-TCTGAGTTGC-CACACACGCCCGTGTACCAGG
* * * *
24780033 TCGTGTGCTAGGTCGTGTAACTCTCTGCGTTGCCACACACGGCCGTGTGCCAGG
1 CCGTGTGCTAGGTCGTGTAACTCTCTGAGTTGCCACACACGCCCGTGTACCAGG
* * *
24780087 CCATGTGTTAGGACGTGTAACTCTCTGAGTTGCCACACAC
1 CCGTGTGCTAGGTCGTGTAACTCTCTGAGTTGCCACACAC
24780127 TCTCCTGTGC
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
53 2 0.02
54 79 0.98
ACGTcount: A:0.18, C:0.28, G:0.27, T:0.27
Consensus pattern (54 bp):
CCGTGTGCTAGGTCGTGTAACTCTCTGAGTTGCCACACACGCCCGTGTACCAGG
Found at i:24780136 original size:54 final size:54
Alignment explanation
Indices: 24780036--24780163 Score: 168
Period size: 54 Copynumber: 2.4 Consensus size: 54
24780026 TACCAGGTCG
* * * *
24780036 TGTGCTAGGTCGTGTAACTCTCTGCGTTGCCACACACGGCCGTGTGCCAGGCCA
1 TGTGTTAGGACGTGTAACTCTCTGAGTTGCCACACACGGCCCTGTGCCAGGCCA
*
24780090 TGTGTTAGGACGTGTAACTCTCTGAGTTGCCACACAC-TCTCCTGTGCCAGGCCA
1 TGTGTTAGGACGTGTAACTCTCTGAGTTGCCACACACGGC-CCTGTGCCAGGCCA
* * *
24780144 TGAGTTCGGATGTGTAACTC
1 TGTGTTAGGACGTGTAACTC
24780164 ATTGACTTGA
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
53 1 0.02
54 64 0.98
ACGTcount: A:0.17, C:0.28, G:0.27, T:0.27
Consensus pattern (54 bp):
TGTGTTAGGACGTGTAACTCTCTGAGTTGCCACACACGGCCCTGTGCCAGGCCA
Found at i:24797035 original size:24 final size:24
Alignment explanation
Indices: 24797008--24797054 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
24796998 TAATTAGATT
24797008 TTTTGATT-TAAAATAGATATAAAA
1 TTTT-ATTATAAAATAGATATAAAA
* *
24797032 TTTTCTTATAAAATATATATAAA
1 TTTTATTATAAAATAGATATAAA
24797055 TTAAAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 2 0.10
24 18 0.90
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (24 bp):
TTTTATTATAAAATAGATATAAAA
Found at i:24798148 original size:29 final size:29
Alignment explanation
Indices: 24798114--24798172 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
24798104 TCTACCTTGA
* * * *
24798114 CACGAATTCTCAATGAATAAGTTCTTCAC
1 CACGAACTCTCAACGAACAAGTTCTCCAC
24798143 CACGAACTCTCAACGAACAAGTTCTCCAC
1 CACGAACTCTCAACGAACAAGTTCTCCAC
24798172 C
1 C
24798173 TCTTCCATGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.34, C:0.32, G:0.10, T:0.24
Consensus pattern (29 bp):
CACGAACTCTCAACGAACAAGTTCTCCAC
Found at i:24807228 original size:20 final size:21
Alignment explanation
Indices: 24807200--24807242 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
24807190 GTGAGAGTTT
24807200 TATTCTCTA-AATATA-AATTC
1 TATTCTCTAGAATA-ACAATTC
*
24807220 TATTTTCTAGAATAACAATTC
1 TATTCTCTAGAATAACAATTC
24807241 TA
1 TA
24807243 CTGGTTTCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.40, C:0.14, G:0.02, T:0.44
Consensus pattern (21 bp):
TATTCTCTAGAATAACAATTC
Found at i:24821552 original size:39 final size:40
Alignment explanation
Indices: 24821457--24821718 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
24821447 TTGAATGATG
*
24821457 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
24821495 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
24821536 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
24821575 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
24821614 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
24821653 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
24821692 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
24821719 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:24827407 original size:29 final size:29
Alignment explanation
Indices: 24827368--24827428 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
24827358 CGATGAATGA
24827368 AAAGGAATAGCTTCAGCTATC-AATTTATG
1 AAAGGAATAGCTTCAGCTATCGAA-TTATG
* *
24827397 AAAGGGATAGCTTCGGCTATCGAATTATG
1 AAAGGAATAGCTTCAGCTATCGAATTATG
24827426 AAA
1 AAA
24827429 ATGGATGTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 27 0.93
30 2 0.07
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.28
Consensus pattern (29 bp):
AAAGGAATAGCTTCAGCTATCGAATTATG
Found at i:24827486 original size:30 final size:30
Alignment explanation
Indices: 24827452--24827524 Score: 101
Period size: 30 Copynumber: 2.4 Consensus size: 30
24827442 ACCATCAAAT
* *
24827452 TATGAAAAGGGATAGCTTTGGCTATGGAAC
1 TATGAAAAGGGATAACTTTGGCTATCGAAC
* *
24827482 TATGAAAAGGGATAACTTTGGTTATCGAAT
1 TATGAAAAGGGATAACTTTGGCTATCGAAC
*
24827512 TACGAAAAGGGAT
1 TATGAAAAGGGAT
24827525 GTGATAACCA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.37, C:0.08, G:0.27, T:0.27
Consensus pattern (30 bp):
TATGAAAAGGGATAACTTTGGCTATCGAAC
Found at i:24834997 original size:13 final size:13
Alignment explanation
Indices: 24834979--24835003 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24834969 ATTGTAAGTA
24834979 ATAAACTCATGTG
1 ATAAACTCATGTG
24834992 ATAAACTCATGT
1 ATAAACTCATGT
24835004 AATATATGTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (13 bp):
ATAAACTCATGTG
Found at i:24835204 original size:19 final size:19
Alignment explanation
Indices: 24835180--24835217 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
24835170 GTTATACAAA
24835180 CTTACTAAGCACTTATGCT
1 CTTACTAAGCACTTATGCT
*
24835199 CTTACTAAGCATTTATGCT
1 CTTACTAAGCACTTATGCT
24835218 TACTCTGTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.24, G:0.11, T:0.39
Consensus pattern (19 bp):
CTTACTAAGCACTTATGCT
Found at i:24845055 original size:50 final size:50
Alignment explanation
Indices: 24844957--24845055 Score: 117
Period size: 50 Copynumber: 2.0 Consensus size: 50
24844947 TACCAATTTG
* *** * * * *
24844957 CAGCCCGTATGAGCTTACCGATTTTTGACTCGTGTGAACTTACTGATTCT
1 CAGCCCATATGAGCTTACCGATTTACAACTCGAGAGAACATACCGATTCT
*
24845007 CAGCCCATATGAGCTTACCGATTTACAACTCGAGAGAGCATACCGATTC
1 CAGCCCATATGAGCTTACCGATTTACAACTCGAGAGAACATACCGATTC
24845056 ATAGCTTATA
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 40 1.00
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.29
Consensus pattern (50 bp):
CAGCCCATATGAGCTTACCGATTTACAACTCGAGAGAACATACCGATTCT
Found at i:24858206 original size:43 final size:43
Alignment explanation
Indices: 24858154--24858263 Score: 141
Period size: 43 Copynumber: 2.6 Consensus size: 43
24858144 CTAGCACGTA
24858154 AGTGCATCATCGAATATACCGAAGTAACTATACTGGCACACAC
1 AGTGCATCATCGAATATACCGAAGTAACTATACTGGCACACAC
* * * * * *
24858197 AGTGCATCATTGGATATATCGGAGTAACTTTACTGGCACACAT
1 AGTGCATCATCGAATATACCGAAGTAACTATACTGGCACACAC
*
24858240 AGTGCATTATC-AGATATACCGAAG
1 AGTGCATCATCGA-ATATACCGAAG
24858264 GATCATTTAT
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
43 55 1.00
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (43 bp):
AGTGCATCATCGAATATACCGAAGTAACTATACTGGCACACAC
Found at i:24859739 original size:14 final size:14
Alignment explanation
Indices: 24859715--24859749 Score: 61
Period size: 14 Copynumber: 2.4 Consensus size: 14
24859705 AAACACCATG
24859715 TAATGTCCTATCATA
1 TAAT-TCCTATCATA
24859730 TAATTCCTATCATA
1 TAATTCCTATCATA
24859744 TAATTC
1 TAATTC
24859750 AGGCAAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 16 0.80
15 4 0.20
ACGTcount: A:0.34, C:0.20, G:0.03, T:0.43
Consensus pattern (14 bp):
TAATTCCTATCATA
Found at i:24877422 original size:74 final size:73
Alignment explanation
Indices: 24877252--24877424 Score: 201
Period size: 74 Copynumber: 2.4 Consensus size: 73
24877242 TTTAGCCTGG
* * * *
24877252 ATGGGTAACGTGACATGTATATATCTTCAAATTGGTTAAGTAATTGAATATGTCGTTATAAAGGT
1 ATGGGTAACTTGACATG-ATATATATTCAAATTGGTTAAGCAATCGAATATGTCGTTATAAAGGT
24877317 TTAACCCAA
65 TTAACCCAA
** *
24877326 ATAGGG-AACTTAGCACAT-ATATATATTCAGCTTGGTTAAGCAATCGAA-AGTGTCGTTATAAC
1 AT-GGGTAACTT-G-ACATGATATATATTCAAATTGGTTAAGCAATCGAATA-TGTCGTTATAAA
*
24877388 GGTTTAGCCCAA
62 GGTTTAACCCAA
24877400 ATGGGTAACTTGACATGA-ATATATT
1 ATGGGTAACTTGACATGATATATATT
24877425 TAGCTCGAAC
Statistics
Matches: 85, Mismatches: 8, Indels: 14
0.79 0.07 0.13
Matches are distributed among these distances:
72 11 0.13
73 6 0.07
74 60 0.71
75 4 0.05
76 4 0.05
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.33
Consensus pattern (73 bp):
ATGGGTAACTTGACATGATATATATTCAAATTGGTTAAGCAATCGAATATGTCGTTATAAAGGTT
TAACCCAA
Found at i:24883077 original size:40 final size:39
Alignment explanation
Indices: 24883046--24883255 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
24883036 GGACTAAGAT
* *
24883046 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
24883086 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
24883126 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
24883166 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
24883206 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
24883245 CCGAAGGCATT
1 CCGAAGGCATT
24883256 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:24883209 original size:120 final size:120
Alignment explanation
Indices: 24882993--24883255 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
24882983 TTGAATGCTG
* *
24882993 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
24883057 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
24883113 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
24883176 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
24883232 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
24883256 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:24883275 original size:79 final size:80
Alignment explanation
Indices: 24882994--24883290 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
24882984 TGAATGCTGT
* ** * * * **
24882994 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
24883057 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
24883074 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
24883138 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
24883154 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
24883218 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
24883233 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
24883291 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:24891023 original size:40 final size:39
Alignment explanation
Indices: 24890992--24891201 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
24890982 GGACTAAGAT
* *
24890992 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
24891032 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
24891072 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
24891112 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
24891152 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
24891191 CCGAAGGCATT
1 CCGAAGGCATT
24891202 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:24891155 original size:120 final size:120
Alignment explanation
Indices: 24890939--24891201 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
24890929 TTGAATGCTG
* *
24890939 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
24891003 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
24891059 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
24891122 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
24891178 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
24891202 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:24891221 original size:79 final size:80
Alignment explanation
Indices: 24890940--24891236 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
24890930 TGAATGCTGT
* ** * * * **
24890940 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
24891003 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
24891020 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
24891084 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
24891100 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
24891164 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
24891179 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
24891237 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:24904536 original size:21 final size:22
Alignment explanation
Indices: 24904502--24904543 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
24904492 TCAATTTCTC
*
24904502 AATCCAATATATATATTTCAAT
1 AATCCAATATATATAATTCAAT
*
24904524 AATCTAATA-ATATAATTCAA
1 AATCCAATATATATAATTCAA
24904544 GTTACACGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (22 bp):
AATCCAATATATATAATTCAAT
Found at i:24906500 original size:23 final size:23
Alignment explanation
Indices: 24906469--24906520 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
24906459 ACCTACTTTT
* * *
24906469 TTACTGTAGTAATTTTCGGGGTA
1 TTACAGTAGTAATTTTCAGGATA
24906492 TTACAGTAGTAATTTTCAGGATA
1 TTACAGTAGTAATTTTCAGGATA
24906515 TTACAG
1 TTACAG
24906521 CCAAGTCTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCAGGATA
Found at i:24906917 original size:46 final size:48
Alignment explanation
Indices: 24906856--24906971 Score: 173
Period size: 48 Copynumber: 2.5 Consensus size: 48
24906846 GGTAGAACTA
* *
24906856 AAAATCCTGAGATAGAAATCGAGT-AAAACTG-TTAAACAGTAGGATT
1 AAAATCCTGAAATAGAAATCGAATAAAAACTGTTTAAACAGTAGGATT
* *
24906902 AAAATCCTAAAATAGAAATCGAATAAAAACTGTTTAAACGGTAGGATT
1 AAAATCCTGAAATAGAAATCGAATAAAAACTGTTTAAACAGTAGGATT
*
24906950 AAAATCCTGAAACAGAAATCGA
1 AAAATCCTGAAATAGAAATCGA
24906972 TTTTATTTTA
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
46 21 0.34
47 7 0.11
48 34 0.55
ACGTcount: A:0.49, C:0.12, G:0.16, T:0.22
Consensus pattern (48 bp):
AAAATCCTGAAATAGAAATCGAATAAAAACTGTTTAAACAGTAGGATT
Found at i:24910661 original size:12 final size:12
Alignment explanation
Indices: 24910641--24910674 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
24910631 AAAAAAAATG
24910641 ATTTTATTTAAT
1 ATTTTATTTAAT
*
24910653 ATTTCATTTAAT
1 ATTTTATTTAAT
24910665 ATTTTATTTA
1 ATTTTATTTA
24910675 TTTATTTTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (12 bp):
ATTTTATTTAAT
Found at i:24910744 original size:21 final size:20
Alignment explanation
Indices: 24910709--24910761 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
24910699 TTATATTAGT
*
24910709 TTTTATTTATTTATTTACTTA
1 TTTTATTT-TTTATTGACTTA
* *
24910730 TTATTATTTTTTATTGGCTTG
1 TT-TTATTTTTTATTGACTTA
24910751 TTTTATTTTTT
1 TTTTATTTTTT
24910762 TTTTCGCCCT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 9 0.32
21 13 0.46
22 6 0.21
ACGTcount: A:0.17, C:0.04, G:0.06, T:0.74
Consensus pattern (20 bp):
TTTTATTTTTTATTGACTTA
Found at i:24910831 original size:3 final size:3
Alignment explanation
Indices: 24910823--24910864 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
24910813 CAAAACTTAG
* *
24910823 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATC ATT ATT GTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
24910865 TATATTGTCG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:24915969 original size:18 final size:18
Alignment explanation
Indices: 24915948--24916020 Score: 74
Period size: 18 Copynumber: 4.1 Consensus size: 18
24915938 ACAGTTTGAA
24915948 ATATTAATACAGTTCACC
1 ATATTAATACAGTTCACC
* *
24915966 ATATTAATATAGATCACC
1 ATATTAATACAGTTCACC
* * *
24915984 AAATTAACACAGTTCAAC
1 ATATTAATACAGTTCACC
* * *
24916002 ATAATAATATAATTCACC
1 ATATTAATACAGTTCACC
24916020 A
1 A
24916021 AGTTAACATG
Statistics
Matches: 42, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 42 1.00
ACGTcount: A:0.47, C:0.19, G:0.04, T:0.30
Consensus pattern (18 bp):
ATATTAATACAGTTCACC
Found at i:24916035 original size:36 final size:36
Alignment explanation
Indices: 24915950--24916028 Score: 106
Period size: 36 Copynumber: 2.2 Consensus size: 36
24915940 AGTTTGAAAT
* * *
24915950 ATTAATACAGTTCACCATATTAATATAGATCACCAA
1 ATTAACACAGTTCAACATAATAATATAGATCACCAA
24915986 ATTAACACAGTTCAACATAATAATATA-ATTCACCAA
1 ATTAACACAGTTCAACATAATAATATAGA-TCACCAA
*
24916022 GTTAACA
1 ATTAACA
24916029 TGGTTCACAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
35 1 0.03
36 37 0.97
ACGTcount: A:0.47, C:0.19, G:0.05, T:0.29
Consensus pattern (36 bp):
ATTAACACAGTTCAACATAATAATATAGATCACCAA
Found at i:24917758 original size:23 final size:21
Alignment explanation
Indices: 24917722--24917765 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 21
24917712 ATTTTAATAT
24917722 TTTAATTAATTAATTCCTAATTA
1 TTTAATTAATTAA-T-CTAATTA
24917745 TTTAATT-ATATAATCTAATTA
1 TTTAATTAAT-TAATCTAATTA
24917766 CGGTTTTCGG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 7 0.35
22 3 0.15
23 10 0.50
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (21 bp):
TTTAATTAATTAATCTAATTA
Found at i:24917764 original size:32 final size:31
Alignment explanation
Indices: 24917695--24917765 Score: 85
Period size: 31 Copynumber: 2.3 Consensus size: 31
24917685 CTTAACCTAA
*
24917695 AATT-ATTAATTCTAATTATTTTAATATTTT
1 AATTAATTAATTCTAATTATTTTAATATTAT
24917725 AATTAATTAATTCCTAATTA-TTTAAT-TATAT
1 AATTAATTAATT-CTAATTATTTTAATAT-TAT
24917756 AATCTAATTA
1 AAT-TAATTA
24917766 CGGTTTTCGG
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
30 5 0.14
31 18 0.50
32 13 0.36
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.54
Consensus pattern (31 bp):
AATTAATTAATTCTAATTATTTTAATATTAT
Found at i:24919450 original size:14 final size:14
Alignment explanation
Indices: 24919431--24919465 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
24919421 ATAACCAATG
24919431 AGTTTTCATACATA
1 AGTTTTCATACATA
24919445 AGTTTTCATACATA
1 AGTTTTCATACATA
24919459 AGTTTTC
1 AGTTTTC
24919466 TCTCTTGCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.14, G:0.09, T:0.46
Consensus pattern (14 bp):
AGTTTTCATACATA
Found at i:24920912 original size:17 final size:17
Alignment explanation
Indices: 24920890--24920926 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
24920880 TATATACGTG
*
24920890 TTAAATAAATTAATATT
1 TTAAATAAAATAATATT
*
24920907 TTAAATAAAATAATTTT
1 TTAAATAAAATAATATT
24920924 TTA
1 TTA
24920927 TTATTTTACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TTAAATAAAATAATATT
Found at i:24935990 original size:45 final size:46
Alignment explanation
Indices: 24935859--24935990 Score: 232
Period size: 45 Copynumber: 2.9 Consensus size: 46
24935849 TGTGAATCGA
24935859 ACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCCA-TCGG
1 ACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCCACTCGG
24935904 ACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCCACT-GG
1 ACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCCACTCGG
* *
24935949 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCAC
1 ACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCCAC
24935991 CGAGTATCTG
Statistics
Matches: 84, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
45 83 0.99
46 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.35
Consensus pattern (46 bp):
ACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCCACTCGG
Found at i:24939995 original size:16 final size:16
Alignment explanation
Indices: 24939976--24940024 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
24939966 TATTTGACAA
*
24939976 TTTAAATATAAATTAT
1 TTTATATATAAATTAT
* **
24939992 TTTATTTATATTTTAT
1 TTTATATATAAATTAT
24940008 TTTATATATAAA-TAT
1 TTTATATATAAATTAT
24940023 TT
1 TT
24940025 ATTTATTTAT
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
15 5 0.19
16 21 0.81
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTATATATAAATTAT
Found at i:24940030 original size:34 final size:32
Alignment explanation
Indices: 24939975--24940050 Score: 91
Period size: 34 Copynumber: 2.3 Consensus size: 32
24939965 GTATTTGACA
* *
24939975 ATTTAAATATAAATTATTTTATTTATAT-TTT
1 ATTTATATATAAATTATTTTATTTATATGTAT
*
24940006 ATTTTATATATAAATATTTATTTATTTATATGTAT
1 A-TTTATATATAAAT-TAT-TTTATTTATATGTAT
24940041 ATTTATATAT
1 ATTTATATAT
24940051 TTTGTTCACT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
31 1 0.03
32 12 0.32
33 2 0.05
34 20 0.53
35 3 0.08
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (32 bp):
ATTTATATATAAATTATTTTATTTATATGTAT
Found at i:24940035 original size:18 final size:17
Alignment explanation
Indices: 24939988--24940035 Score: 55
Period size: 16 Copynumber: 2.8 Consensus size: 17
24939978 TAAATATAAA
24939988 TTATTTTATTTAT-ATT
1 TTATTTTATTTATAATT
*
24940004 TTATTTTATATATAAATAT
1 TTATTTTATTTAT-AAT-T
24940023 TTA-TTTATTTATA
1 TTATTTTATTTATA
24940036 TGTATATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 12 0.44
17 1 0.04
18 10 0.37
19 4 0.15
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TTATTTTATTTATAATT
Found at i:24940035 original size:20 final size:20
Alignment explanation
Indices: 24940003--24940052 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
24939993 TTATTTATAT
*
24940003 TTTATTT-TATATATAAATA
1 TTTATTTATTTATATAAATA
**
24940022 TTTATTTATTTATATGTATA
1 TTTATTTATTTATATAAATA
*
24940042 TTTATATATTT
1 TTTATTTATTT
24940053 TGTTCACTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 7 0.27
20 19 0.73
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (20 bp):
TTTATTTATTTATATAAATA
Found at i:24940278 original size:88 final size:84
Alignment explanation
Indices: 24940177--24940847 Score: 534
Period size: 87 Copynumber: 7.8 Consensus size: 84
24940167 TATTTTAGTG
* * * *
24940177 AATAAAATTTGTTTCGGGATTTATTCTCGCTATTCAACGGATTTTATTCCAATTTTGATTTTATT
1 AATAAAATTTGTTTCGGGATTTATTCCCGCTGTTCAACAGATTTTATT-C-ATTTTGATTTTGTT
* *
24940242 TCCAAAACAAGTATTAAAATTAA
64 TCC-AAACGAGAATTAAAATT-A
* ** * * * * *
24940265 AATAAAATATGTTTCATGATTTATT-CCGGTCGTTCAACGGATTTTATTCCTTTTTTATTTTATT
1 AATAAAATTTGTTTCGGGATTTATTCCCGCT-GTTCAACAGATTTTATT-CATTTTGATTTTGTT
* *
24940329 TTCAAACGAGAAATTAAAGTTA
64 TCCAAACGAG-AATTAAAATTA
* * * * * * *
24940351 AATAAAATATGTTTCAGGATTTAATCCCGCCGTTCAATAGATTTTATTACATTTTCATTTTGTTG
1 AATAAAATTTGTTTCGGGATTTATTCCCGCTGTTCAACAGATTTTATT-CATTTTGATTTTGTTT
24940416 CCAAAACGAGAAATTAAAATTA
65 CC-AAACGAG-AATTAAAATTA
* * * * * * *
24940438 AATAAAATCTATTTTGAGATTTATTCCCGCTATTTAACAAGATTTTATTCGATTTTAATTTTGTT
1 AATAAAATTTGTTTCGGGATTTATTCCCGCTGTTCAAC-AGATTTTATTC-ATTTTGATTTTGTT
**
24940503 TCCAAATTAGAATT-AAATTA
64 TCCAAACGAGAATTAAAATTA
* * * * * * *
24940523 AACAAAATTTTTTTCAGGATTTATTCCCACCGTTTAACAAGATTTTATTCAATATTGA-TTTGTT
1 AATAAAATTTGTTTCGGGATTTATTCCCGCTGTTCAAC-AGATTTTATTC-ATTTTGATTTTGTT
* *
24940587 TCCAAACGAAGACTT--AATCA
64 TCCAAACG-AGAATTAAAATTA
* * **
24940607 AAT-AACTTTGTTTCGGTATTTATTCCCG-TCGTTCAATGGATTTTATTACATTTTGATTTTGTT
1 AATAAAATTTGTTTCGGGATTTATTCCCGCT-GTTCAACAGATTTTATT-CATTTTGATTTTGTT
24940670 TCCAAAACGAGAAATTAAAATTA
64 TCC-AAACGAG-AATTAAAATTA
* * * * * *
24940693 AATAAAATATGTTTCGAGATTTATTCCCGCCGTTTAACAAGATTTTATTTTATTTTAATTTTGTT
1 AATAAAATTTGTTTCGGGATTTATTCCCGCTGTTCAAC-AGATTTTA-TTCATTTTGATTTTGTT
** *
24940758 TCCAAATTAGAATT-AAATAA
64 TCCAAACGAGAATTAAAATTA
* * **
24940778 AATAAAATTTGTTTCGGGATTTATTCCC-TTCGTTTAACAAGATTTTATTCGATACTGA-TTTGT
1 AATAAAATTTGTTTCGGGATTTATTCCCGCT-GTTCAAC-AGATTTTATTC-ATTTTGATTTTGT
24940841 TTCCAAA
63 TTCCAAA
24940848 TGAAGACTTA
Statistics
Matches: 474, Mismatches: 89, Indels: 44
0.78 0.15 0.07
Matches are distributed among these distances:
82 15 0.03
83 37 0.08
84 40 0.08
85 108 0.23
86 73 0.15
87 111 0.23
88 88 0.19
89 2 0.00
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.43
Consensus pattern (84 bp):
AATAAAATTTGTTTCGGGATTTATTCCCGCTGTTCAACAGATTTTATTCATTTTGATTTTGTTTC
CAAACGAGAATTAAAATTA
Found at i:24940544 original size:85 final size:84
Alignment explanation
Indices: 24940177--24940847 Score: 526
Period size: 85 Copynumber: 7.8 Consensus size: 84
24940167 TATTTTAGTG
* * * * * *
24940177 AATAAAATTTGTTTCGGGATTTATTCTCGCTATTCAAC-GGATTTTATTCCAATTTTGATTTTAT
1 AATAAAATTTGTTTCAGGATTTATTCCCGCTGTTTAACAAGATTTTATT-C-ATTTTGATTTTGT
* *
24940241 TTCCAAAACAAGTATTAAAATTAA
64 TTCC-AAACGAGAATT-AAATT-A
* * * * * * * *
24940265 AATAAAATATGTTTCATGATTTATT-CCGGTCGTTCAAC-GGATTTTATTCCTTTTTTATTTTAT
1 AATAAAATTTGTTTCAGGATTTATTCCCGCT-GTTTAACAAGATTTTATT-CATTTTGATTTTGT
*
24940328 TTTCAAACGAGAAATTAAAGTTA
64 TTCCAAACGAG-AATTAAA-TTA
* * * * * *
24940351 AATAAAATATGTTTCAGGATTTAATCCCGCCGTTCAA-TAGATTTTATTACATTTTCATTTTGTT
1 AATAAAATTTGTTTCAGGATTTATTCCCGCTGTTTAACAAGATTTTATT-CATTTTGATTTTGTT
*
24940415 GCCAAAACGAGAAATTAAAATTA
65 TCC-AAACGAG-AATT-AAATTA
* * *
24940438 AATAAAATCTAT-TTTGA-GATTTATTCCCGCTATTTAACAAGATTTTATTCGATTTTAATTTTG
1 AATAAAAT-T-TGTTTCAGGATTTATTCCCGCTGTTTAACAAGATTTTATTC-ATTTTGATTTTG
**
24940501 TTTCCAAATTAGAATTAAATTA
63 TTTCCAAACGAGAATTAAATTA
* * * * *
24940523 AACAAAATTTTTTTCAGGATTTATTCCCACCGTTTAACAAGATTTTATTCAATATTGA-TTTGTT
1 AATAAAATTTGTTTCAGGATTTATTCCCGCTGTTTAACAAGATTTTATTC-ATTTTGATTTTGTT
* *
24940587 TCCAAACGAAGACTT-AATCA
65 TCCAAACG-AGAATTAAATTA
* * **
24940607 AAT-AACTTTGTTTC-GGTATTTATTCCCG-TCGTTCAA-TGGATTTTATTACATTTTGATTTTG
1 AATAAAATTTGTTTCAGG-ATTTATTCCCGCT-GTTTAACAAGATTTTATT-CATTTTGATTTTG
24940668 TTTCCAAAACGAGAAATTAAAATTA
63 TTTCC-AAACGAG-AATT-AAATTA
* * * *
24940693 AATAAAATATGTTTC-GAGATTTATTCCCGCCGTTTAACAAGATTTTATTTTATTTTAATTTTGT
1 AATAAAATTTGTTTCAG-GATTTATTCCCGCTGTTTAACAAGATTTTA-TTCATTTTGATTTTGT
** *
24940757 TTCCAAATTAGAATTAAATAA
64 TTCCAAACGAGAATTAAATTA
* * **
24940778 AATAAAATTTGTTTCGGGATTTATTCCC-TTCGTTTAACAAGATTTTATTCGATACTGA-TTTGT
1 AATAAAATTTGTTTCAGGATTTATTCCCGCT-GTTTAACAAGATTTTATTC-ATTTTGATTTTGT
24940841 TTCCAAA
64 TTCCAAA
24940848 TGAAGACTTA
Statistics
Matches: 479, Mismatches: 74, Indels: 64
0.78 0.12 0.10
Matches are distributed among these distances:
82 17 0.04
83 37 0.08
84 45 0.09
85 103 0.22
86 77 0.16
87 101 0.21
88 96 0.20
89 3 0.01
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.43
Consensus pattern (84 bp):
AATAAAATTTGTTTCAGGATTTATTCCCGCTGTTTAACAAGATTTTATTCATTTTGATTTTGTTT
CCAAACGAGAATTAAATTA
Found at i:24940668 original size:255 final size:254
Alignment explanation
Indices: 24940360--24940908 Score: 812
Period size: 255 Copynumber: 2.1 Consensus size: 254
24940350 AAATAAAATA
* *
24940360 TGTTTCAGGATTTAATCCCGCCGTTCAATAGATTTTATTACATTTTCATTTTGTTGCCAAAACGA
1 TGTTTC-GGATTTATTCCCGACGTTCAATAGATTTTATTACATTTTCATTTTGTTGCCAAAACGA
* * *
24940425 GAAATTAAAATTAAATAAAATCTATTTTGAGATTTATTCCCGCTATTTAACAAGATTTTATTCGA
65 GAAATTAAAATTAAATAAAATATATTTCGAGATTTATTCCCGCCATTTAACAAGATTTTATTCGA
* *
24940490 TTTTAATTTTGTTTCCAAATTAGAATTAAATTAAACAAAATTTTTTTCAGGATTTATTCCCACCG
130 TTTTAATTTTGTTTCCAAATTAGAATTAAATAAAACAAAATTTGTTTCAGGATTTATTCCCACCG
*
24940555 TTTAACAAGATTTTATTCAATATTGATTTGTTTCCAAACGAAGACTTAATCAAATAACTT-
195 TTTAACAAGATTTTATTCAATACTGATTTGTTTCCAAACGAAGACTTAATCAAATAA-TTC
* * * *
24940615 TGTTTCGGTATTTATTCCCGTCGTTCAATGGATTTTATTACATTTTGATTTTGTTTCCAAAACGA
1 TGTTTCGG-ATTTATTCCCGACGTTCAATAGATTTTATTACATTTTCATTTTGTTGCCAAAACGA
* * **
24940680 GAAATTAAAATTAAATAAAATATGTTTCGAGATTTATTCCCGCCGTTTAACAAGATTTTATTTTA
65 GAAATTAAAATTAAATAAAATATATTTCGAGATTTATTCCCGCCATTTAACAAGATTTTATTCGA
* * **
24940745 TTTTAATTTTGTTTCCAAATTAGAATTAAATAAAATAAAATTTGTTTCGGGATTTATTCCCTTCG
130 TTTTAATTTTGTTTCCAAATTAGAATTAAATAAAACAAAATTTGTTTCAGGATTTATTCCCACCG
* *
24940810 TTTAACAAGATTTTATTCGATACTGATTTGTTTCCAAATGAAGACTTAATCAAATAATTC
195 TTTAACAAGATTTTATTCAATACTGATTTGTTTCCAAACGAAGACTTAATCAAATAATTC
* * * * *
24940870 TATATCGGGATTTATTCCCGACGTTTAACAGACTTTATT
1 TGTTTC-GGATTTATTCCCGACGTTCAATAGATTTTATT
24940909 TTGATTTAAT
Statistics
Matches: 263, Mismatches: 28, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
254 4 0.02
255 257 0.98
256 2 0.01
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.42
Consensus pattern (254 bp):
TGTTTCGGATTTATTCCCGACGTTCAATAGATTTTATTACATTTTCATTTTGTTGCCAAAACGAG
AAATTAAAATTAAATAAAATATATTTCGAGATTTATTCCCGCCATTTAACAAGATTTTATTCGAT
TTTAATTTTGTTTCCAAATTAGAATTAAATAAAACAAAATTTGTTTCAGGATTTATTCCCACCGT
TTAACAAGATTTTATTCAATACTGATTTGTTTCCAAACGAAGACTTAATCAAATAATTC
Found at i:24940895 original size:83 final size:84
Alignment explanation
Indices: 24940455--24940908 Score: 392
Period size: 85 Copynumber: 5.4 Consensus size: 84
24940445 TCTATTTTGA
* * *
24940455 GATTTATTCCCG-CTATTTAACAAGATTTTATTCGATTTTAATTTTGTTTCCAAAT-TAGAATTA
1 GATTTATTCCCGAC-GTTTAACAAGATTTTATTCGATTTTGATTTTGTTTCCAAATGAAGAATTA
* * *
24940518 AATTAAACAAAATTTTTTTCAG
65 AA-TAAA-ATAATTTGTTTCGG
* * * *
24940540 GATTTATTCCC-ACCGTTTAACAAGATTTTATTCAATATTGA-TTTGTTTCCAAACGAAGACTT-
1 GATTTATTCCCGA-CGTTTAACAAGATTTTATTCGATTTTGATTTTGTTTCCAAATGAAGAATTA
*
24940602 AATCAAATAACTTTGTTTCGG
65 AATAAAATAA-TTTGTTTCGG
* * * ** *
24940623 TATTTATTCCCGTCGTTCAA-TGGATTTTATTAC-ATTTTGATTTTGTTTCCAAAACG-AGAAAT
1 GATTTATTCCCGACGTTTAACAAGATTTTATT-CGATTTTGATTTTGTTTCC-AAATGAAG-AAT
* * *
24940685 TAAAATTAAATAAAATATGTTTCGA
63 T-AAA-TAAA-ATAATTTGTTTCGG
* ** * *
24940710 GATTTATTCCCGCCGTTTAACAAGATTTTATTTTATTTTAATTTTGTTTCCAAAT-TAGAATTAA
1 GATTTATTCCCGACGTTTAACAAGATTTTATTCGATTTTGATTTTGTTTCCAAATGAAGAATTAA
24940774 ATAAAATAAAATTTGTTTCGG
66 ATAAAAT--AATTTGTTTCGG
** ** *
24940795 GATTTATTCCCTTCGTTTAACAAGATTTTATTCGATACTGA-TTTGTTTCCAAATGAAGACTT-A
1 GATTTATTCCCGACGTTTAACAAGATTTTATTCGATTTTGATTTTGTTTCCAAATGAAGAATTAA
* * *
24940858 ATCAAATAATTCTATATCGG
66 ATAAAATAATT-TGTTTCGG
*
24940878 GATTTATTCCCGACGTTTAAC-AGACTTTATT
1 GATTTATTCCCGACGTTTAACAAGATTTTATT
24940909 TTGATTTAAT
Statistics
Matches: 301, Mismatches: 48, Indels: 43
0.77 0.12 0.11
Matches are distributed among these distances:
82 31 0.10
83 65 0.22
84 46 0.15
85 91 0.30
86 7 0.02
87 33 0.11
88 28 0.09
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (84 bp):
GATTTATTCCCGACGTTTAACAAGATTTTATTCGATTTTGATTTTGTTTCCAAATGAAGAATTAA
ATAAAATAATTTGTTTCGG
Found at i:24946273 original size:15 final size:15
Alignment explanation
Indices: 24946231--24946285 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
24946221 TAATCCAATT
24946231 GAAAAAGAA-AAAGAA
1 GAAAAAGAAGAAA-AA
* **
24946246 GTTAAAA-AAGAAATT
1 G-AAAAAGAAGAAAAA
24946261 GAAAAAGAAGAAAAA
1 GAAAAAGAAGAAAAA
24946276 GAAAAAGAAG
1 GAAAAAGAAG
24946286 TTGAAAAAGA
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
14 4 0.13
15 20 0.65
16 7 0.23
ACGTcount: A:0.73, C:0.00, G:0.20, T:0.07
Consensus pattern (15 bp):
GAAAAAGAAGAAAAA
Found at i:24946291 original size:12 final size:12
Alignment explanation
Indices: 24946237--24946295 Score: 55
Period size: 12 Copynumber: 4.7 Consensus size: 12
24946227 AATTGAAAAA
24946237 GAAAAAGAAGTT
1 GAAAAAGAAGTT
* *
24946249 AAAAAAGAAATT
1 GAAAAAGAAGTT
**
24946261 GAAAAAGAAGAAAAA
1 GAAAAAGAAG---TT
24946276 GAAAAAGAAGTT
1 GAAAAAGAAGTT
24946288 GAAAAAGA
1 GAAAAAGA
24946296 GACAAAATTT
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
12 26 0.72
15 10 0.28
ACGTcount: A:0.69, C:0.00, G:0.20, T:0.10
Consensus pattern (12 bp):
GAAAAAGAAGTT
Found at i:24949734 original size:41 final size:41
Alignment explanation
Indices: 24949674--24949782 Score: 182
Period size: 41 Copynumber: 2.7 Consensus size: 41
24949664 ATTCACCCGT
* * *
24949674 ACTTAGCCTACTAGACGTAAAGTCTGATTCAGTACACCAGC
1 ACTTAGCCTGCTAGGCGTAAAGCCTGATTCAGTACACCAGC
*
24949715 ACTTAGCCTGCTAGGCGTAAAGCCTGATTTAGTACACCAGC
1 ACTTAGCCTGCTAGGCGTAAAGCCTGATTCAGTACACCAGC
24949756 ACTTAGCCTGCTAGGCGTAAAGCCTGA
1 ACTTAGCCTGCTAGGCGTAAAGCCTGA
24949783 AAATCTCAAT
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 64 1.00
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (41 bp):
ACTTAGCCTGCTAGGCGTAAAGCCTGATTCAGTACACCAGC
Found at i:24951520 original size:4 final size:4
Alignment explanation
Indices: 24951511--24951536 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
24951501 AAATTTTATG
24951511 TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT
24951537 ATAAGTACAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:24956414 original size:41 final size:41
Alignment explanation
Indices: 24956354--24956462 Score: 191
Period size: 41 Copynumber: 2.7 Consensus size: 41
24956344 ATTCACCCGT
* * *
24956354 ACTTAGCCTACTAGCCGTAAAGCCTGATTCAGTACACCGGC
1 ACTTAGCCTGCTAGGCGTAAAGCCTGATTCAGTACACCAGC
24956395 ACTTAGCCTGCTAGGCGTAAAGCCTGATTCAGTACACCAGC
1 ACTTAGCCTGCTAGGCGTAAAGCCTGATTCAGTACACCAGC
24956436 ACTTAGCCTGCTAGGCGTAAAGCCTGA
1 ACTTAGCCTGCTAGGCGTAAAGCCTGA
24956463 AAATCTCAAT
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 65 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (41 bp):
ACTTAGCCTGCTAGGCGTAAAGCCTGATTCAGTACACCAGC
Found at i:24961121 original size:20 final size:20
Alignment explanation
Indices: 24961098--24961137 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
24961088 ATTTTATTCG
*
24961098 ATTTCAATCAATTTGATTTA
1 ATTTCAATCAAATTGATTTA
*
24961118 ATTTTAATCAAATTGATTTA
1 ATTTCAATCAAATTGATTTA
24961138 TTGGCTCCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.07, G:0.05, T:0.50
Consensus pattern (20 bp):
ATTTCAATCAAATTGATTTA
Found at i:24970885 original size:50 final size:50
Alignment explanation
Indices: 24970823--24970946 Score: 185
Period size: 50 Copynumber: 2.5 Consensus size: 50
24970813 TGAGCCACGT
* * *
24970823 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGAGCTCTTATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * * *
24970873 TGCCAACTCCATGTCCCAAACATGGTCTTACGGGGGACCTCTCATCTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
24970923 TGCCAACGCCATGTCCCAGACATG
1 TGCCAACGCCATGTCCCAGACATG
24970947 TCGTTGAGGC
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 65 1.00
ACGTcount: A:0.21, C:0.32, G:0.23, T:0.24
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:24971108 original size:50 final size:50
Alignment explanation
Indices: 24971001--24971246 Score: 330
Period size: 50 Copynumber: 4.9 Consensus size: 50
24970991 GATAATAACA
* * * * **
24971001 TGCCAAAGCCATGTCCCAGACATGGTATTAGATGGGATGTTCTCATCTCGG
1 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGA-CCTCTCATCTCGG
* ** *
24971052 TGCCAACTCCATGTCCCAAACATGGTCTTACGGGGGACCTCTCATCTTGG
1 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGG
*
24971102 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGG
* *
24971152 TGCCAACGCCATGTCCCAAACATGGTCTTACATGAGACCACTCATCTCGG
1 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGG
* * * *
24971202 TGCCAACGCGATATCTCAGACATGGTCTTACATGGGACCTCTCAT
1 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCAT
24971247 AATCTCAATG
Statistics
Matches: 171, Mismatches: 24, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
50 141 0.82
51 30 0.18
ACGTcount: A:0.23, C:0.30, G:0.22, T:0.25
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:24975547 original size:50 final size:50
Alignment explanation
Indices: 24975440--24975730 Score: 348
Period size: 50 Copynumber: 5.7 Consensus size: 50
24975430 GATAATAACA
* * **
24975440 TGCCAAAGCCATGTCCCAGACATGGTATTACATGGGATGTTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * ** *
24975491 TGCCAACTCCATGTCCCAAACATGGTCTTACGGGGGACCTCTCATCTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
24975541 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
24975591 TGCCAACGCCATGTCCCAAACATGGTCTTACATGAGACCACTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * *
24975641 TGCCAACGCGATATCTCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC---GG
* * *
24975697 TGCCAATGTCATGTCCCAGACATGTTCTTACATG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATG
24975731 AGGTCTCTTT
Statistics
Matches: 204, Mismatches: 30, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
50 139 0.68
51 31 0.15
53 5 0.02
56 29 0.14
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:24982031 original size:32 final size:32
Alignment explanation
Indices: 24981990--24982050 Score: 122
Period size: 32 Copynumber: 1.9 Consensus size: 32
24981980 ACTATAAAGA
24981990 ACAAATATCCACTGCCTAGAATTGATGATCTG
1 ACAAATATCCACTGCCTAGAATTGATGATCTG
24982022 ACAAATATCCACTGCCTAGAATTGATGAT
1 ACAAATATCCACTGCCTAGAATTGATGAT
24982051 TTGTTTGACC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.28
Consensus pattern (32 bp):
ACAAATATCCACTGCCTAGAATTGATGATCTG
Found at i:24989706 original size:40 final size:40
Alignment explanation
Indices: 24989561--24989744 Score: 209
Period size: 40 Copynumber: 4.7 Consensus size: 40
24989551 TTGAATGATG
* *
24989561 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
* * * *
24989600 TTCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
24989640 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
24989679 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
24989720 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
24989745 AACGAGGAGC
Statistics
Matches: 124, Mismatches: 14, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
39 52 0.42
40 62 0.50
41 10 0.08
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:24989766 original size:79 final size:79
Alignment explanation
Indices: 24989613--24989777 Score: 194
Period size: 79 Copynumber: 2.1 Consensus size: 79
24989603 GGACTAAGAT
* ** *
24989613 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
*
24989678 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
*
24989692 CCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAG
1 CCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-
* *
24989754 CTATATCC-GGTTAAATT
62 CTAAATCCGGGTTAAATC
24989771 CCGAAGG
1 CCGAAGG
24989778 TACATGATTT
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
78 3 0.04
79 46 0.62
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
ATCCGGGTTAAATC
Found at i:24994139 original size:40 final size:40
Alignment explanation
Indices: 24993948--24994132 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
24993938 TCGAATGATG
* * * *
24993948 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
24993988 TCCAGACTAAGAT-CCGAAGGCATTTGTGCGAGCTACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
24994028 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
24994067 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
24994108 -CCGGGCTATGTCCCGAAAGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
24994133 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
39 34 0.28
40 78 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:24994154 original size:79 final size:79
Alignment explanation
Indices: 24994001--24994155 Score: 190
Period size: 79 Copynumber: 2.0 Consensus size: 79
24993991 AGACTAAGAT
* * **
24994001 CCGAAGGCATTTGTGCGAGCTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGCTACTAATACCGGGCTAAGCCCGAAAGCATTGGAACGAGTTACTAA
24994066 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* * *
24994080 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAAGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGCTACTAAT-ACCGGGCTAAG-CCCGAAAGCATTGGAACGAGTTA-C
*
24994143 TATATCC-GGTTAA
63 TAAATCCGGGTTAA
24994156 ATTTCGAAGG
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
78 2 0.03
79 40 0.62
80 23 0.35
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGCTACTAATACCGGGCTAAGCCCGAAAGCATTGGAACGAGTTACTAA
ATCCGGGTTAAGTC
Found at i:24997299 original size:49 final size:49
Alignment explanation
Indices: 24997220--24997749 Score: 600
Period size: 49 Copynumber: 10.7 Consensus size: 49
24997210 TCTATTATGA
*
24997220 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
*
24997269 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGT-CC-GATAACTTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA--TT
* * * * *
24997318 GATCACGTCTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
24997367 GGTCGCATGTGTAGTACTAAGTACAGGCTACTATGCGTACCCA-ATAACTTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCAGATAA--TT
* * * *
24997418 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * *
24997467 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACTC-GATAACTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CAGATAA-TT
* * * * * **
24997517 CGATCACGTGTGTAGTACTAAGTGAAGCCTACTACGTGTATCAGATGGTT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* *
24997567 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * *
24997617 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGATAACTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* * * *
24997667 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATC
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
** *
24997717 GGTTGCATGTGTAGTACTAAGTACAGGCTACTA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTA
24997750 TGCGTACTAG
Statistics
Matches: 405, Mismatches: 62, Indels: 28
0.82 0.13 0.06
Matches are distributed among these distances:
47 5 0.01
48 2 0.00
49 220 0.54
50 59 0.15
51 119 0.29
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:24997604 original size:150 final size:147
Alignment explanation
Indices: 24997222--24997749 Score: 652
Period size: 150 Copynumber: 3.5 Consensus size: 147
24997212 TATTATGAGG
* * *
24997222 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGAAGGCTACTACGTGTACCAGATAATTGGTCACGTGTGTAGTACT
* * * *
24997287 AAGTGCAGGCTACTACGTGT-CCGATAACTTTGATCACGTCTGTAGTACTAAGTGCAGGCTACTA
66 AAGTGCAGGCTACTACGTGTACCGATAA--TTGGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
* * *
24997351 CGTGTACCGGATTA-TT-GG
129 TGTGTACC-GATAACTTCGA
* * * * *
24997369 TCGCATGTGTAGTACTAAGT-ACAGGCTACTATGCGTACCCA-ATAACTTTGATCACGTGTGTAG
1 TCACGTGTGTAGTACTAAGTGA-AGGCTACTACGTGTA-CCAGATAA--TTGGTCACGTGTGTAG
*
24997432 TACTAAGTGCAGGCTACTACGTGTACCGGATTATTGGTCGCATGTGTAGTACTAAGTGCAGGCTA
62 TACTAAGTGCAGGCTACTACGTGTACC-GATAATTGGTCGCATGTGTAGTACTAAGTGCAGGCTA
*
24997497 CTATGCGTACTCGATAACTTCGA
126 CTATGTGTAC-CGATAACTTCGA
* * **
24997520 TCACGTGTGTAGTACTAAGTGAAGCCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGAAGGCTACTACGTGTACCAGATAATT-GGTCACGTGTGTAGTAC
*
24997585 TAAGTGCAGGCTACTACGTGTATCAGATAATTGGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
65 TAAGTGCAGGCTACTACGTGTA-CCGATAATTGGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
24997650 TGTGTACCCGATAACTTCGA
129 TGTGTA-CCGATAACTTCGA
* * * ** *
24997670 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATCGGTTGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGAAGGCTACTACGTGTACCAGATAATTGGTCACGTGTGTAGTACT
*
24997735 AAGTACAGGCTACTA
66 AAGTGCAGGCTACTA
24997750 TGCGTACTAG
Statistics
Matches: 327, Mismatches: 40, Indels: 26
0.83 0.10 0.07
Matches are distributed among these distances:
147 35 0.11
148 3 0.01
149 108 0.33
150 141 0.43
151 39 0.12
152 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (147 bp):
TCACGTGTGTAGTACTAAGTGAAGGCTACTACGTGTACCAGATAATTGGTCACGTGTGTAGTACT
AAGTGCAGGCTACTACGTGTACCGATAATTGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATG
TGTACCGATAACTTCGA
Found at i:24997666 original size:250 final size:247
Alignment explanation
Indices: 24997227--24997762 Score: 788
Period size: 250 Copynumber: 2.2 Consensus size: 247
24997217 TGAGGTCACG
* * * *
24997227 TGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CAGATAATTGGTCGCATGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACTC-GATAATTGATCACATGTGTAGTACTAAGT
* * * *
24997291 GCAGGCTACTACGTGTCCGATAACTTTGATCACGTCTGTAGTACTAAGTGCAGGCTACTACGTGT
65 GAAGCCTACTACGTGTCAGATAACTTAGATCACGTCTGTAGTACTAAGTGCAGGCTACTACGTGT
* * *
24997356 ACCGGATTATTGGTCGCATGTGTAGTACTAAGTACAGGCTACTATGCGTACCCAATAACTTTGAT
130 ACCAGATAATTGGTCGCATGTGTAGTACTAAGTACAGGCTACTATGCGTACCCAATAACTTCGAT
* *
24997421 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTATTGGTCGCA
195 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATCGGTCGCA
*
24997474 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCGATAACTTCGATCACGTGTGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCGATAA-TT-GATCACATGTGTAGTACTAAG
** * *
24997539 TGAAGCCTACTACGTGTATCAGAT-GGTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACG
64 TGAAGCCTACTACGTG--TCAGATAACTTAGATCACGTCTGTAGTACTAAGTGCAGGCTACTACG
* * * *
24997603 TGTATCAGATAATTGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGATAACTTC
127 TGTACCAGATAATTGGTCGCATGTGTAGTACTAAGTACAGGCTACTATGCGTACCCAATAACTTC
*
24997668 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATCGGTTGCA
192 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATCGGTCGCA
* *
24997724 TGTGTAGTACTAAGTACAGGCTACTATGCGTACTAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCGATA
24997763 GCTTTGGTTA
Statistics
Matches: 259, Mismatches: 25, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
247 36 0.14
248 3 0.01
249 32 0.12
250 183 0.71
251 5 0.02
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (247 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCGATAATTGATCACATGTGTAGTACTAAGTG
AAGCCTACTACGTGTCAGATAACTTAGATCACGTCTGTAGTACTAAGTGCAGGCTACTACGTGTA
CCAGATAATTGGTCGCATGTGTAGTACTAAGTACAGGCTACTATGCGTACCCAATAACTTCGATC
ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATCGGTCGCA
Found at i:24997701 original size:100 final size:99
Alignment explanation
Indices: 24997222--24997749 Score: 627
Period size: 100 Copynumber: 5.3 Consensus size: 99
24997212 TATTATGAGG
24997222 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
*
24997287 AAGTGCAGGCTACTACGTG--TCCGATAACTTTGA
66 AAGTGCAGGCTACTACGTGTATCAGATAAC-TTGA
* * *
24997320 TCACGTCTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
* * * *
24997385 AAGTACAGGCTACTATGCGTACCCA-ATAACTTTGA
66 AAGTGCAGGCTACTACGTGTA-TCAGATAAC-TTGA
* *
24997420 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
* *
24997485 AAGTGCAGGCTACTATGCGTACTC-GATAACTTCGA
66 AAGTGCAGGCTACTACGTGTA-TCAGATAACTT-GA
* * * ** * *
24997520 TCACGTGTGTAGTACTAAGTGAAGCCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCGCATGTGTAGTAC
*
24997585 TAAGTGCAGGCTACTACGTGTATCAGATAA-TTGG
65 TAAGTGCAGGCTACTACGTGTATCAGATAACTTGA
* * * * * * *
24997619 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGATAACTTCGATCACGTGTGTAGTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT-GGTCGCATGTGTAGTA
* * * *
24997684 CTAAGTGCAGGCTACTACGTGTACCGGATAA-TCGG
64 CTAAGTGCAGGCTACTACGTGTATCAGATAACTTGA
** * *
24997719 TTGCATGTGTAGTACTAAGTACAGGCTACTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTA
24997750 TGCGTACTAG
Statistics
Matches: 384, Mismatches: 38, Indels: 14
0.88 0.09 0.03
Matches are distributed among these distances:
98 78 0.20
99 39 0.10
100 226 0.59
101 41 0.11
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (99 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
AAGTGCAGGCTACTACGTGTATCAGATAACTTGA
Found at i:25000681 original size:16 final size:17
Alignment explanation
Indices: 25000651--25000686 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
25000641 CTCTCTTTTG
*
25000651 TTTTCTTTTTCTTATTT
1 TTTTCTTCTTCTTATTT
25000668 TTTTCTTCTT-TTATTT
1 TTTTCTTCTTCTTATTT
25000684 TTT
1 TTT
25000687 GACAATCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.06, C:0.11, G:0.00, T:0.83
Consensus pattern (17 bp):
TTTTCTTCTTCTTATTT
Found at i:25000844 original size:32 final size:32
Alignment explanation
Indices: 25000803--25000867 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
25000793 TCCCATAAAC
*
25000803 TTGAAAGTATATCGATTGGTATACCCGTCGTG
1 TTGAAAGTATATCGATTGGTATACCCATCGTG
25000835 TTGAAAGTATATCGATTGGTATACCCATCGTG
1 TTGAAAGTATATCGATTGGTATACCCATCGTG
25000867 T
1 T
25000868 AGCACTCGCG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.35
Consensus pattern (32 bp):
TTGAAAGTATATCGATTGGTATACCCATCGTG
Found at i:25002834 original size:12 final size:12
Alignment explanation
Indices: 25002817--25002907 Score: 57
Period size: 12 Copynumber: 7.8 Consensus size: 12
25002807 TTCTAATTTC
25002817 AAATTTTTTTTG
1 AAATTTTTTTTG
*
25002829 AAATTTTTTTCTTC
1 AAA-TTTTTT-TTG
25002843 AAACTTTTTTTTG
1 AAA-TTTTTTTTG
* **
25002856 AACTTTTTTCCG
1 AAATTTTTTTTG
*
25002868 -AA-TTTTTTCG
1 AAATTTTTTTTG
25002878 -AA-TTTTTTTG
1 AAATTTTTTTTG
* *
25002888 AACTTTTTTTCG
1 AAATTTTTTTTG
25002900 -AATTTTTT
1 AAATTTTTT
25002908 AAACTTTTTT
Statistics
Matches: 63, Mismatches: 12, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
10 16 0.25
11 9 0.14
12 17 0.27
13 10 0.16
14 11 0.17
ACGTcount: A:0.21, C:0.10, G:0.07, T:0.63
Consensus pattern (12 bp):
AAATTTTTTTTG
Found at i:25002850 original size:15 final size:13
Alignment explanation
Indices: 25002813--25002864 Score: 52
Period size: 13 Copynumber: 4.0 Consensus size: 13
25002803 AATGTTCTAA
25002813 TTTCAAA-TTTTT
1 TTTCAAATTTTTT
*
25002825 TTTGAAATTTTTT
1 TTTCAAATTTTTT
*
25002838 TCTTCAAACTTTTT
1 T-TTCAAATTTTTT
* *
25002852 TTTGAACTTTTTT
1 TTTCAAATTTTTT
25002865 CCGAATTTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
12 6 0.19
13 15 0.47
14 11 0.34
ACGTcount: A:0.21, C:0.10, G:0.04, T:0.65
Consensus pattern (13 bp):
TTTCAAATTTTTT
Found at i:25002850 original size:26 final size:27
Alignment explanation
Indices: 25002814--25002864 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
25002804 ATGTTCTAAT
25002814 TTCAAA-TTTTTTTTGAAATTTTTTTC
1 TTCAAACTTTTTTTTGAAATTTTTTTC
*
25002840 TTCAAACTTTTTTTTGAACTTTTTT
1 TTCAAACTTTTTTTTGAAATTTTTT
25002865 CCGAATTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 6 0.26
27 17 0.74
ACGTcount: A:0.22, C:0.10, G:0.04, T:0.65
Consensus pattern (27 bp):
TTCAAACTTTTTTTTGAAATTTTTTTC
Found at i:25002864 original size:10 final size:11
Alignment explanation
Indices: 25002848--25002917 Score: 67
Period size: 10 Copynumber: 6.5 Consensus size: 11
25002838 TCTTCAAACT
*
25002848 TTTTTTTGAAC
1 TTTTTTCGAAC
25002859 TTTTTTCCGAA-
1 TTTTTT-CGAAC
25002870 TTTTTTCGAA-
1 TTTTTTCGAAC
*
25002880 TTTTTTTGAAC
1 TTTTTTCGAAC
25002891 TTTTTTTCGAA-
1 -TTTTTTCGAAC
*
25002902 TTTTTT-AAAC
1 TTTTTTCGAAC
25002912 TTTTTT
1 TTTTTT
25002918 TGCATGTTTT
Statistics
Matches: 51, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
9 2 0.04
10 25 0.49
11 12 0.24
12 12 0.24
ACGTcount: A:0.19, C:0.10, G:0.07, T:0.64
Consensus pattern (11 bp):
TTTTTTCGAAC
Found at i:25002865 original size:26 final size:26
Alignment explanation
Indices: 25002814--25002865 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
25002804 ATGTTCTAAT
*
25002814 TTCAAATTTTTTTTGAAATTTTTTTC
1 TTCAAATTTTTTTTGAAACTTTTTTC
25002840 TTCAAACTTTTTTTTG-AACTTTTTTC
1 TTCAAA-TTTTTTTTGAAACTTTTTTC
25002866 CGAATTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 15 0.62
27 9 0.38
ACGTcount: A:0.21, C:0.12, G:0.04, T:0.63
Consensus pattern (26 bp):
TTCAAATTTTTTTTGAAACTTTTTTC
Found at i:25002884 original size:22 final size:21
Alignment explanation
Indices: 25002848--25002917 Score: 72
Period size: 22 Copynumber: 3.3 Consensus size: 21
25002838 TCTTCAAACT
* *
25002848 TTTTTTTGAACTTTTTTCCGAA-
1 TTTTTTCGAA-TTTTTT-TGAAC
25002870 TTTTTTCGAATTTTTTTGAAC
1 TTTTTTCGAATTTTTTTGAAC
*
25002891 TTTTTTTCGAA-TTTTTTAAAC
1 -TTTTTTCGAATTTTTTTGAAC
25002912 TTTTTT
1 TTTTTT
25002918 TGCATGTTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
20 9 0.21
21 15 0.35
22 19 0.44
ACGTcount: A:0.19, C:0.10, G:0.07, T:0.64
Consensus pattern (21 bp):
TTTTTTCGAATTTTTTTGAAC
Found at i:25002916 original size:32 final size:33
Alignment explanation
Indices: 25002835--25002919 Score: 120
Period size: 32 Copynumber: 2.6 Consensus size: 33
25002825 TTTGAAATTT
25002835 TTTTCTTCAAACTTTTTTTTGAACTTTTTTCCGAA
1 TTTT-TTCAAAC-TTTTTTTGAACTTTTTTCCGAA
* *
25002870 TTTTTTCGAA-TTTTTTTGAACTTTTTTTCGAA
1 TTTTTTCAAACTTTTTTTGAACTTTTTTCCGAA
25002902 TTTTTT-AAACTTTTTTTG
1 TTTTTTCAAACTTTTTTTG
25002920 CATGTTTTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
31 2 0.04
32 35 0.76
34 5 0.11
35 4 0.09
ACGTcount: A:0.19, C:0.12, G:0.07, T:0.62
Consensus pattern (33 bp):
TTTTTTCAAACTTTTTTTGAACTTTTTTCCGAA
Found at i:25002918 original size:22 final size:22
Alignment explanation
Indices: 25002870--25002918 Score: 82
Period size: 21 Copynumber: 2.3 Consensus size: 22
25002860 TTTTTCCGAA
*
25002870 TTTTTTCGAATTTTTTTGAACT
1 TTTTTTCGAATTTTTTTAAACT
25002892 TTTTTTCGAA-TTTTTTAAACT
1 TTTTTTCGAATTTTTTTAAACT
25002913 TTTTTT
1 TTTTTT
25002919 GCATGTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 16 0.62
22 10 0.38
ACGTcount: A:0.18, C:0.08, G:0.06, T:0.67
Consensus pattern (22 bp):
TTTTTTCGAATTTTTTTAAACT
Found at i:25009323 original size:30 final size:31
Alignment explanation
Indices: 25009299--25009357 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
25009289 GTAAATACTC
* *
25009299 AAAATTTGAGGGATTAA-AGTGTAAATATAA
1 AAAATTTGAAGGACTAATAGTGTAAATATAA
*
25009329 AAAATTTGAAGGACTAATAGTGCAAATAT
1 AAAATTTGAAGGACTAATAGTGTAAATAT
25009358 TTTAAGGGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 15 0.60
31 10 0.40
ACGTcount: A:0.49, C:0.03, G:0.19, T:0.29
Consensus pattern (31 bp):
AAAATTTGAAGGACTAATAGTGTAAATATAA
Found at i:25009634 original size:20 final size:19
Alignment explanation
Indices: 25009583--25009636 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
25009573 AATTAGATAA
25009583 TTATTATTTATTTAATATT
1 TTATTATTTATTTAATATT
* **
25009602 TTAATAAGATATTTAATATT
1 TT-ATTATTTATTTAATATT
25009622 TTATTATTTTATTTA
1 TTATTA-TTTATTTA
25009637 GTATATATAT
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
19 5 0.19
20 22 0.81
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (19 bp):
TTATTATTTATTTAATATT
Found at i:25012260 original size:66 final size:66
Alignment explanation
Indices: 25012154--25012279 Score: 159
Period size: 66 Copynumber: 1.9 Consensus size: 66
25012144 GACAATATAT
* * *
25012154 GTGTAAGACCATAGCTAGGCTATGTCATCCTGATGATAAGACCATA-TCTGGAATATGGCACAAC
1 GTGTAAGACCATAGCTAGGCCATGACATCATGATGATAAGACCATAGT-TGGAATATGGCACAAC
25012218 GA
65 GA
* *
25012220 GTGTAAGACCGTAGCTAGGCCATGACAATACATG-TG-TAAGACCATAGTTGGACTATGGCA
1 GTGTAAGACCATAGCTAGGCCATGAC-AT-CATGATGATAAGACCATAGTTGGAATATGGCA
25012280 TCATACCAGA
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
66 44 0.85
67 5 0.10
68 3 0.06
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.24
Consensus pattern (66 bp):
GTGTAAGACCATAGCTAGGCCATGACATCATGATGATAAGACCATAGTTGGAATATGGCACAACG
A
Found at i:25012389 original size:45 final size:45
Alignment explanation
Indices: 25012289--25012414 Score: 144
Period size: 45 Copynumber: 2.8 Consensus size: 45
25012279 ATCATACCAG
* * *
25012289 AAACGAGTAAGACCATAGCTAAAAGACGCTATGGCATCATGATTC
1 AAACGAGTAAGACCATAGCTGAAAGATGCTATGGCATCACGATTC
* *
25012334 AGACGAGTAAGACCATAGCTGAAAGATGCTATGGCATCGCGATTC
1 AAACGAGTAAGACCATAGCTGAAAGATGCTATGGCATCACGATTC
* * * * * * *
25012379 AAATGTGTAAGACAATGGTTGAAAGATACCATGGCA
1 AAACGAGTAAGACCATAGCTGAAAGATGCTATGGCA
25012415 ACATGTTATG
Statistics
Matches: 68, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 68 1.00
ACGTcount: A:0.38, C:0.17, G:0.24, T:0.21
Consensus pattern (45 bp):
AAACGAGTAAGACCATAGCTGAAAGATGCTATGGCATCACGATTC
Found at i:25012443 original size:46 final size:46
Alignment explanation
Indices: 25012338--25012696 Score: 409
Period size: 46 Copynumber: 7.8 Consensus size: 46
25012328 TGATTCAGAC
* * * * * ** *
25012338 GAGTAAGACCATAGCTGAAAGATGCTATGGCATCGCGAT-TCAAAT
1 GAGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAAT
* * *
25012383 GTGTAAGACAATGGTTGAAAGATACCATGGCAACATGTTATGAAAT
1 GAGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAAT
*
25012429 GCGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAAT
1 GAGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAAT
* *
25012475 GTGTAAGACCCTGGTTGAAAGATACCATGGCAACATGATATGAAAT
1 GAGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAAT
* ** *
25012521 -ATGTAAGACAATGGTTGAAAGATACCATGGCAATGTGACATGAAAT
1 GA-GTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAAT
* * ***
25012567 GAATAAGACCATGGTTGAAAGATACCATGGCAACATAACGGGGAAAT
1 GAGTAAGACCATGGTTGAAAGATACCATGGCAACATGA-TATGAAAT
* *
25012614 GAATAAGACCATGGTTGAAAGATACCATGGCAACCTGATA-GAAAAT
1 GAGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG-AAAT
* * * *
25012660 GAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 GAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
25012697 TCGAAGATAA
Statistics
Matches: 269, Mismatches: 40, Indels: 9
0.85 0.13 0.03
Matches are distributed among these distances:
45 30 0.11
46 197 0.73
47 42 0.16
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.22
Consensus pattern (46 bp):
GAGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAAT
Found at i:25012809 original size:26 final size:26
Alignment explanation
Indices: 25012779--25012833 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
25012769 ACCAGATGAC
*
25012779 AAATGGTTATATGAATTGGTTATACA
1 AAATGGTTATATGAAATGGTTATACA
* * *
25012805 AAATGGTTGTGTGAAATGTTTATACA
1 AAATGGTTATATGAAATGGTTATACA
25012831 AAA
1 AAA
25012834 ATAGTTGCAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.40, C:0.04, G:0.20, T:0.36
Consensus pattern (26 bp):
AAATGGTTATATGAAATGGTTATACA
Found at i:25012846 original size:27 final size:26
Alignment explanation
Indices: 25012789--25012848 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
25012779 AAATGGTTAT
* * *
25012789 ATGAATTGGTTATACAAAATGGTTGT
1 ATGAAATGGTTATACAAAATAGTTGC
* *
25012815 GTGAAATGTTTATACAAAAATAGTTGC
1 ATGAAATGGTTATAC-AAAATAGTTGC
25012842 ATGAAAT
1 ATGAAAT
25012849 AATTATGAAG
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
26 12 0.44
27 15 0.56
ACGTcount: A:0.40, C:0.05, G:0.20, T:0.35
Consensus pattern (26 bp):
ATGAAATGGTTATACAAAATAGTTGC
Found at i:25012854 original size:27 final size:26
Alignment explanation
Indices: 25012798--25012854 Score: 60
Period size: 27 Copynumber: 2.2 Consensus size: 26
25012788 TATGAATTGG
* ** **
25012798 TTATACAAAATGGTTGTGTGAAATGT
1 TTATACAAAATAGTTGCATGAAATAA
25012824 TTATACAAAAATAGTTGCATGAAATAA
1 TTATAC-AAAATAGTTGCATGAAATAA
25012851 TTAT
1 TTAT
25012855 GAAGATAGAT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 6 0.24
27 19 0.76
ACGTcount: A:0.42, C:0.05, G:0.16, T:0.37
Consensus pattern (26 bp):
TTATACAAAATAGTTGCATGAAATAA
Found at i:25015141 original size:30 final size:31
Alignment explanation
Indices: 25015107--25015174 Score: 86
Period size: 30 Copynumber: 2.2 Consensus size: 31
25015097 TGGCCCAAGA
* * *
25015107 GTAAATACTCAAAA-TTTGAGGGATTAA-AGT
1 GTAAATAC-AAAAATTTTGAAGGACTAATAGT
25015137 GTAAATACAAAAATTTTGAAGGACTAATAGT
1 GTAAATACAAAAATTTTGAAGGACTAATAGT
25015168 GTAAATA
1 GTAAATA
25015175 TTTTAAGGGT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 4 0.12
30 19 0.58
31 10 0.30
ACGTcount: A:0.47, C:0.06, G:0.18, T:0.29
Consensus pattern (31 bp):
GTAAATACAAAAATTTTGAAGGACTAATAGT
Found at i:25016805 original size:25 final size:25
Alignment explanation
Indices: 25016772--25016840 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
25016762 CTCTTTAAAT
25016772 AACTAGGGCAAAGCCCATTTT-GATA
1 AACTAGGGCAAAGCCC-TTTTCGATA
* *
25016797 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTAGGGCAAAGCCCTTTTCGATA
*
25016822 AACTAGGGCATAGCCCTTT
1 AACTAGGGCAAAGCCCTTT
25016841 ATCACTTCCT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
24 4 0.10
25 35 0.90
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (25 bp):
AACTAGGGCAAAGCCCTTTTCGATA
Found at i:25016911 original size:21 final size:20
Alignment explanation
Indices: 25016885--25016929 Score: 72
Period size: 21 Copynumber: 2.2 Consensus size: 20
25016875 GCATATACAT
25016885 ATATCATGGCATATCATGTGC
1 ATATCATGGCATATCATG-GC
*
25016906 ATATCATGGCATATTATGGC
1 ATATCATGGCATATCATGGC
25016926 ATAT
1 ATAT
25016930 TATGTACAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.36
Consensus pattern (20 bp):
ATATCATGGCATATCATGGC
Found at i:25016933 original size:10 final size:10
Alignment explanation
Indices: 25016885--25016929 Score: 72
Period size: 10 Copynumber: 4.4 Consensus size: 10
25016875 GCATATACAT
25016885 ATATCATGGC
1 ATATCATGGC
25016895 ATATCATGTGC
1 ATATCATG-GC
25016906 ATATCATGGC
1 ATATCATGGC
*
25016916 ATATTATGGC
1 ATATCATGGC
25016926 ATAT
1 ATAT
25016930 TATGTACAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
10 23 0.70
11 10 0.30
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.36
Consensus pattern (10 bp):
ATATCATGGC
Found at i:25024637 original size:10 final size:10
Alignment explanation
Indices: 25024589--25024633 Score: 63
Period size: 10 Copynumber: 4.4 Consensus size: 10
25024579 GCATATACAT
25024589 ATATCATGGC
1 ATATCATGGC
*
25024599 ATATCATGTTC
1 ATATCATG-GC
25024610 ATATCATGGC
1 ATATCATGGC
*
25024620 ATATTATGGC
1 ATATCATGGC
25024630 ATAT
1 ATAT
25024634 TATGTACAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
10 22 0.71
11 9 0.29
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.38
Consensus pattern (10 bp):
ATATCATGGC
Found at i:25029295 original size:22 final size:22
Alignment explanation
Indices: 25029269--25029316 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
25029259 TTTCCCAAAG
25029269 ATAAACTTCAATATATTTATAT
1 ATAAACTTCAATATATTTATAT
25029291 ATAAACTTCAATATATTTATAT
1 ATAAACTTCAATATATTTATAT
25029313 -TAAA
1 ATAAA
25029317 TAAATTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 4 0.15
22 22 0.85
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (22 bp):
ATAAACTTCAATATATTTATAT
Found at i:25036712 original size:16 final size:17
Alignment explanation
Indices: 25036680--25036712 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
25036670 CCTTCTCACC
25036680 TTTTCTTTTCTTCCATA
1 TTTTCTTTTCTTCCATA
25036697 TTTTCTTTTC-TCCATA
1 TTTTCTTTTCTTCCATA
25036713 GCCGAACCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.12, C:0.24, G:0.00, T:0.64
Consensus pattern (17 bp):
TTTTCTTTTCTTCCATA
Found at i:25038846 original size:50 final size:49
Alignment explanation
Indices: 25038726--25038964 Score: 221
Period size: 50 Copynumber: 4.8 Consensus size: 49
25038716 CGAAGCTATC
* * * * * *
25038726 TGATACGCATAGTAGCTTGCGCTTAGTACTACACATGCGACC-AACAAT
1 TGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCAT
* * *
25038774 TCGGTACACATAGTAGCTTGCACTTAGTACTACACACGTGACCTCACCAT
1 T-GATACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCAT
* * * *
25038824 CTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTCAT
1 -TGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-CCAT
* * * * *
25038875 TGAGTACGCATAGTAGCCTGCACTTAGTGCTACACATGCGACTTAA-CAGT
1 TGA-TACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCA-T
* * *
25038925 ATGTTACACGTAGTAGTCTGCACTTAGTACTACACACGTG
1 -TGATACACATAGTAGCCTGCACTTAGTACTACACACGTG
25038965 TACTCACAAT
Statistics
Matches: 155, Mismatches: 29, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
48 1 0.01
49 38 0.25
50 76 0.49
51 40 0.26
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (49 bp):
TGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCAT
Found at i:25038933 original size:101 final size:101
Alignment explanation
Indices: 25038777--25038964 Score: 270
Period size: 101 Copynumber: 1.9 Consensus size: 101
25038767 CAACAATTCG
* * * *
25038777 GTACACATAGTAGCTTGCACTTAGTACTACACACGTGACCTCACCATCTGATACACGTAGTAGCC
1 GTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTCAACATATGATACACGTAGTAGCC
25038842 TGCACTTAGTACTACACACGTGATCGAAGTCATTGA
66 TGCACTTAGTACTACACACGTGATCGAAGTCATTGA
* * * * * *
25038878 GTACGCATAGTAGCCTGCACTTAGTGCTACACATGCGA-CTTAACAGTATGTTACACGTAGTAGT
1 GTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTCAACA-TATGATACACGTAGTAGC
25038942 CTGCACTTAGTACTACACACGTG
65 CTGCACTTAGTACTACACACGTG
25038965 TACTCACAAT
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
100 5 0.07
101 71 0.93
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.27
Consensus pattern (101 bp):
GTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTCAACATATGATACACGTAGTAGCC
TGCACTTAGTACTACACACGTGATCGAAGTCATTGA
Found at i:25040426 original size:27 final size:26
Alignment explanation
Indices: 25040339--25040453 Score: 88
Period size: 27 Copynumber: 4.3 Consensus size: 26
25040329 TGGAGGAAGC
* *
25040339 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGACTCTGCCAC-AATATCT
** *
25040366 GTT-TTTTGTAGCTATGCCACAAATATCT
1 GTTCTGGTG-A-CTCTGCCAC-AATATCT
* * * *
25040394 ATTCTGGTGGCTCTGCCACGATTTCT
1 GTTCTGGTGACTCTGCCACAATATCT
*
25040420 GTATCTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGACTCTGCCACAATATCT
25040447 GTTCTGG
1 GTTCTGG
25040454 CAGCCATGCT
Statistics
Matches: 69, Mismatches: 15, Indels: 9
0.74 0.16 0.10
Matches are distributed among these distances:
26 14 0.20
27 33 0.48
28 19 0.28
29 3 0.04
ACGTcount: A:0.19, C:0.22, G:0.21, T:0.38
Consensus pattern (26 bp):
GTTCTGGTGACTCTGCCACAATATCT
Found at i:25043883 original size:27 final size:26
Alignment explanation
Indices: 25043837--25043911 Score: 69
Period size: 27 Copynumber: 2.8 Consensus size: 26
25043827 TGTATGTAAA
* *
25043837 CCCTAAGTAGTTAAATTTACTAAAATAC
1 CCCTAAGTA--TAAAATTACCAAAATAC
**
25043865 CCCTAAGTATGAAAATTACCATTATAC
1 CCCTAAGTAT-AAAATTACCAAAATAC
* *
25043892 CCCTAGGTGTAAAATTACCA
1 CCCTAAGTATAAAATTACCA
25043912 TTATATCCCT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
26 11 0.28
27 20 0.50
28 9 0.22
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.29
Consensus pattern (26 bp):
CCCTAAGTATAAAATTACCAAAATAC
Found at i:25043910 original size:26 final size:27
Alignment explanation
Indices: 25043861--25043924 Score: 94
Period size: 26 Copynumber: 2.4 Consensus size: 27
25043851 ATTTACTAAA
*
25043861 ATACCCCTAAGTATGAAAATTACCATT
1 ATACCCCTAGGTATGAAAATTACCATT
*
25043888 ATACCCCTAGGTGT-AAAATTACCATT
1 ATACCCCTAGGTATGAAAATTACCATT
*
25043914 ATATCCCTAGG
1 ATACCCCTAGG
25043925 GTTAATTTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 22 0.65
27 12 0.35
ACGTcount: A:0.36, C:0.23, G:0.11, T:0.30
Consensus pattern (27 bp):
ATACCCCTAGGTATGAAAATTACCATT
Found at i:25044097 original size:27 final size:26
Alignment explanation
Indices: 25044026--25044140 Score: 140
Period size: 27 Copynumber: 4.3 Consensus size: 26
25044016 TGGAGGAAGC
25044026 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTATGCCAC-AATATCT
* *
25044053 GTTTTTGGTAGCTATGCCACAAATATCT
1 G-TTCTGGTGGCTATGCCAC-AATATCT
*
25044081 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTATGCCACAATATCT
* * *
25044107 GTATCTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTATGCCACAATATCT
25044134 GTTCTGG
1 GTTCTGG
25044141 CAGACATGCT
Statistics
Matches: 79, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
26 14 0.18
27 40 0.51
28 25 0.32
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTATGCCACAATATCT
Found at i:25044736 original size:27 final size:27
Alignment explanation
Indices: 25044572--25044964 Score: 350
Period size: 27 Copynumber: 14.7 Consensus size: 27
25044562 TTACCCAACA
* * * *
25044572 AGGGTATGTCGGTCATTTTAC-ACTACA
1 AGGGTATTTCGGTAATTTTACAAAT-CG
* *
25044599 AGGGTATTTCGGTAATTTTAC-ACTACA
1 AGGGTATTTCGGTAATTTTACAAAT-CG
* *
25044626 AGGGTATTTCGATAATTTTACAAATAG
1 AGGGTATTTCGGTAATTTTACAAATCG
* * *
25044653 -GGGTGTTTTGGTGATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* * *
25044679 AGGGTATTTTGATAATTTTACAAATTG
1 AGGGTATTTCGGTAATTTTACAAATCG
**
25044706 AGGGTATTTCGGTAATTTTA-AAATTTT
1 AGGGTATTTCGGTAATTTTACAAA-TCG
* * * *
25044733 AGGGTGTTTTGATAATTTTACAAATTG
1 AGGGTATTTCGGTAATTTTACAAATCG
* * *
25044760 AGGGTGTTTCGATAATTTCACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* *
25044787 GGGGTATTTCGGTAATTTTACAAATTG
1 AGGGTATTTCGGTAATTTTACAAATCG
* ** *
25044814 AAGGTATTTTTGTAA-TTT-CATAATTG
1 AGGGTATTTCGGTAATTTTACA-AATCG
* * *
25044840 AGGTTATTTCAGTAATTTTACAAATCA
1 AGGGTATTTCGGTAATTTTACAAATCG
*
25044867 ATGGTATTTCGGTAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* * *
25044894 AGGGTGTTTCGATAATTTTAAAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* * *
25044921 ATGGTGTTTCGGTAATTTCACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
25044948 -GGGTATTTCGGTAATTT
1 AGGGTATTTCGGTAATTT
25044965 CTCTTTATTA
Statistics
Matches: 305, Mismatches: 54, Indels: 15
0.82 0.14 0.04
Matches are distributed among these distances:
25 2 0.01
26 58 0.19
27 238 0.78
28 7 0.02
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (27 bp):
AGGGTATTTCGGTAATTTTACAAATCG
Found at i:25044839 original size:134 final size:134
Alignment explanation
Indices: 25044597--25044964 Score: 399
Period size: 134 Copynumber: 2.7 Consensus size: 134
25044587 TTTTACACTA
* * * * *
25044597 CAAGGGTATTTCGGTAATTTTAC-ACTACAAGGGTATTTCGATAATTTTACAAATAGGGGTGTTT
1 CAAGGGTATTTCGATAATTTTACAAAT-CGAGGGTGTTTCGATAATTTTACAAATCGGGG-GTTT
* * *
25044661 T-GGTGATTTTACAAATCGAGGGTATTTTGATAATTTTACAAATTGAGGGTATTTCGGTAATTTT
64 TCGGTAATTTTACAAATCGAAGGTATTTTGATAATTTTACAAATTGAGGGTATTTCAGTAATTTT
25044725 A-AAATT
129 ACAAA-T
** * * * *
25044731 TTAGGGTGTTTTGATAATTTTACAAATTGAGGGTGTTTCGATAATTTCACAAATCGGGGGTATTT
1 CAAGGGTATTTCGATAATTTTACAAATCGAGGGTGTTTCGATAATTTTACAAATCGGGGGT-TTT
* *
25044796 CGGTAATTTTACAAATTGAAGGTATTTTTG-TAA-TTT-CATAATTGAGGTTATTTCAGTAATTT
65 CGGTAATTTTACAAATCGAAGGTA-TTTTGATAATTTTACA-AATTGAGGGTATTTCAGTAATTT
25044858 TACAAAT
128 TACAAAT
* * * **
25044865 CAATGGTATTTCGGTAATTTTACAAATCGAGGGTGTTTCGATAATTTTAAAAATCGATGGTGTTT
1 CAAGGGTATTTCGATAATTTTACAAATCGAGGGTGTTTCGATAATTTTACAAATCGGGGGT-TTT
* * * *
25044930 CGGTAATTTCACAAATCG-GGGTATTTCGGTAATTT
65 CGGTAATTTTACAAATCGAAGGTATTTTGATAATTT
25044965 CTCTTTATTA
Statistics
Matches: 194, Mismatches: 32, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
132 4 0.02
133 11 0.06
134 146 0.75
135 28 0.14
136 5 0.03
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.41
Consensus pattern (134 bp):
CAAGGGTATTTCGATAATTTTACAAATCGAGGGTGTTTCGATAATTTTACAAATCGGGGGTTTTC
GGTAATTTTACAAATCGAAGGTATTTTGATAATTTTACAAATTGAGGGTATTTCAGTAATTTTAC
AAAT
Found at i:25045325 original size:28 final size:28
Alignment explanation
Indices: 25045294--25045372 Score: 140
Period size: 28 Copynumber: 2.8 Consensus size: 28
25045284 CCCAATCTCG
*
25045294 TTCACATGGCCCATCAGGCCCAAACACA
1 TTCATATGGCCCATCAGGCCCAAACACA
*
25045322 TTCATATGGCCCATCAGGCCCAATCACA
1 TTCATATGGCCCATCAGGCCCAAACACA
25045350 TTCATATGGCCCATCAGGCCCAA
1 TTCATATGGCCCATCAGGCCCAA
25045373 CTGCTTCCCA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 49 1.00
ACGTcount: A:0.29, C:0.37, G:0.15, T:0.19
Consensus pattern (28 bp):
TTCATATGGCCCATCAGGCCCAAACACA
Found at i:25047349 original size:27 final size:27
Alignment explanation
Indices: 25047317--25047372 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
25047307 AGGCAAAACA
* * *
25047317 GTCATTGTACCCTATAGGGGTATGTCG
1 GTCATTGTACACTACAAGGGTATGTCG
* *
25047344 GTCATTTTACACTACAAGGGTATTTCG
1 GTCATTGTACACTACAAGGGTATGTCG
25047371 GT
1 GT
25047373 AAGTTTTCAC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (27 bp):
GTCATTGTACACTACAAGGGTATGTCG
Found at i:25047387 original size:27 final size:27
Alignment explanation
Indices: 25047334--25047408 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
25047324 TACCCTATAG
* * *
25047334 GGGTATGTCGGTCATTTTACACTACAA
1 GGGTATTTCGGTAATTTTACACGACAA
25047361 GGGTATTTCGGTAAGTTTT-CACGACAA
1 GGGTATTTCGGTAA-TTTTACACGACAA
* *
25047388 GTGTATTTCGATAATTTTACA
1 GGGTATTTCGGTAATTTTACA
25047409 AATATGGGGT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
26 4 0.10
27 33 0.80
28 4 0.10
ACGTcount: A:0.27, C:0.15, G:0.21, T:0.37
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTACACGACAA
Found at i:25047423 original size:27 final size:27
Alignment explanation
Indices: 25047390--25047862 Score: 474
Period size: 27 Copynumber: 17.6 Consensus size: 27
25047380 CACGACAAGT
*
25047390 GTATTTCGATAATTTTACAAATATG-GG
1 GTATTTCGATAATTTTACAAAT-CGAGG
* * ** * * *
25047417 GTGTTTCGGTGGTTTTACAAGTCAAAG
1 GTATTTCGATAATTTTACAAATCGAGG
* *
25047444 GTATTTCAATAATTTTACAAATAGAGG
1 GTATTTCGATAATTTTACAAATCGAGG
* * * *
25047471 GTGTTCCTG-TAATATTACAAATCAAGG
1 GTATTTC-GATAATTTTACAAATCGAGG
* *
25047498 GTGTTTCAATAATTTTACAAATCGAGG
1 GTATTTCGATAATTTTACAAATCGAGG
* * *
25047525 GTGTTT-TAGTAATTTCACAAATCGAGG
1 GTATTTCGA-TAATTTTACAAATCGAGG
*
25047552 GTATTTCGATAATTTTACAAATCAAGG
1 GTATTTCGATAATTTTACAAATCGAGG
* *
25047579 GTATTTTGATAATTTTATAAATCGAGG
1 GTATTTCGATAATTTTACAAATCGAGG
* * *
25047606 GTATTTCGATAATTTTTCAAATTGAGA
1 GTATTTCGATAATTTTACAAATCGAGG
* * *
25047633 GTGTTTCGATAATTTGACAAATCAAGG
1 GTATTTCGATAATTTTACAAATCGAGG
* * *
25047660 GTGTTTTGATAATTTTACAAATTGAGG
1 GTATTTCGATAATTTTACAAATCGAGG
25047687 GTATTTC-AGTAATTTTACAAATCGAGG
1 GTATTTCGA-TAATTTTACAAATCGAGG
* *
25047714 GTATTTCAATAATTTCAC-AATCGAGG
1 GTATTTCGATAATTTTACAAATCGAGG
* * *
25047740 GTATTTCAATAATTTTACAAATTGTGG
1 GTATTTCGATAATTTTACAAATCGAGG
25047767 GTATTTCGATAATTTTACAAATCGAGG
1 GTATTTCGATAATTTTACAAATCGAGG
* *
25047794 GTGTTTCGATAATTTTAGAAATCGAGG
1 GTATTTCGATAATTTTACAAATCGAGG
* *
25047821 GTGTTTC-AGTAATTTTACAAAT-TAGGG
1 GTATTTCGA-TAATTTTACAAATCGA-GG
*
25047848 GTATTTCGGTAATTT
1 GTATTTCGATAATTT
25047863 CTCTTTATTA
Statistics
Matches: 368, Mismatches: 67, Indels: 22
0.81 0.15 0.05
Matches are distributed among these distances:
26 29 0.08
27 337 0.92
28 2 0.01
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.39
Consensus pattern (27 bp):
GTATTTCGATAATTTTACAAATCGAGG
Found at i:25048216 original size:28 final size:28
Alignment explanation
Indices: 25048179--25048242 Score: 101
Period size: 28 Copynumber: 2.3 Consensus size: 28
25048169 TGGCCCCTTT
* * *
25048179 AGGCCCAATCTCGTTCACATGGCCCATC
1 AGGCCCAATCACATTCAAATGGCCCATC
25048207 AGGCCCAATCACATTCAAATGGCCCATC
1 AGGCCCAATCACATTCAAATGGCCCATC
25048235 AGGCCCAA
1 AGGCCCAA
25048243 CAACTTCCAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.28, C:0.38, G:0.17, T:0.17
Consensus pattern (28 bp):
AGGCCCAATCACATTCAAATGGCCCATC
Found at i:25051068 original size:27 final size:27
Alignment explanation
Indices: 25051030--25051108 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
25051020 AAGGGCAAAA
* *
25051030 CAGTCATTTTACCCTACAGGGGTATGT
1 CAGTCATTTTACACTACAAGGGTATGT
25051057 CAGTCATTTTACACTACAAGGGTAT-T
1 CAGTCATTTTACACTACAAGGGTATGT
** * *
25051083 TTGATAATTTTAAACTACAAGGGTAT
1 CAG-TCATTTTACACTACAAGGGTAT
25051109 TTTGATAATT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
26 2 0.04
27 43 0.96
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.35
Consensus pattern (27 bp):
CAGTCATTTTACACTACAAGGGTATGT
Found at i:25051109 original size:27 final size:27
Alignment explanation
Indices: 25051062--25051121 Score: 111
Period size: 27 Copynumber: 2.2 Consensus size: 27
25051052 TATGTCAGTC
*
25051062 ATTTTACACTACAAGGGTATTTTGATA
1 ATTTTAAACTACAAGGGTATTTTGATA
25051089 ATTTTAAACTACAAGGGTATTTTGATA
1 ATTTTAAACTACAAGGGTATTTTGATA
25051116 ATTTTA
1 ATTTTA
25051122 CAAATAGGGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.35, C:0.08, G:0.13, T:0.43
Consensus pattern (27 bp):
ATTTTAAACTACAAGGGTATTTTGATA
Found at i:25051133 original size:27 final size:27
Alignment explanation
Indices: 25051075--25051468 Score: 334
Period size: 27 Copynumber: 14.7 Consensus size: 27
25051065 TTACACTACA
* * *
25051075 AGGGTATTTTGATAATTTTA-AACTACA
1 AGGGTATTTCGATAATTTTACAAAT-CG
* *
25051102 AGGGTATTTTGATAATTTTACAAATAG
1 AGGGTATTTCGATAATTTTACAAATCG
* * * * *
25051129 GGGGTGTTTCGGTGATTTTACGAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* *
25051156 AAGGTATTTCGATAATTTTACAGATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* *
25051183 AGAGTATTTCGATAATTTTTCAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* * * *
25051210 AGGGTGTTCCAATAATTTTACAAATTG
1 AGGGTATTTCGATAATTTTACAAATCG
* *
25051237 AGGGT-GTTCCATTAATTTTACAAATCG
1 AGGGTATTTCGA-TAATTTTACAAATCG
* * * *
25051264 AGGGTGTTTTGGTAATTTTACAAATTG
1 AGGGTATTTCGATAATTTTACAAATCG
* **
25051291 GGGGTATTTCGATAATTTTACAAATTA
1 AGGGTATTTCGATAATTTTACAAATCG
25051318 AGGGTATTTTCG-TAA-TTT-CATAATCG
1 AGGGTA-TTTCGATAATTTTACA-AATCG
* *
25051344 AGGTTATTTC-AGTAATTTTACAAATCA
1 AGGGTATTTCGA-TAATTTTACAAATCG
* *
25051371 ATGGTATTTCGGTAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* * * * *
25051398 AGGGTGTTTTGGTAATTCTAAAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* * * *
25051425 ACGGTGTTTCGCTAATTTCACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
25051452 -GGGTATTTCGATAATTT
1 AGGGTATTTCGATAATTT
25051469 CTCTTTATTA
Statistics
Matches: 293, Mismatches: 64, Indels: 21
0.78 0.17 0.06
Matches are distributed among these distances:
25 6 0.02
26 31 0.11
27 244 0.83
28 12 0.04
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (27 bp):
AGGGTATTTCGATAATTTTACAAATCG
Found at i:25054925 original size:27 final size:27
Alignment explanation
Indices: 25054877--25054932 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
25054867 GGGCAAAACA
* **
25054877 GTCATTTTACCCTACAGGGGTATGTCG
1 GTCATTTTACACTACAAAGGTATGTCG
* *
25054904 GTCATTTTATACTACAAAGGTATTTCG
1 GTCATTTTACACTACAAAGGTATGTCG
25054931 GT
1 GT
25054933 AAGTTTTCAC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.38
Consensus pattern (27 bp):
GTCATTTTACACTACAAAGGTATGTCG
Found at i:25054978 original size:27 final size:26
Alignment explanation
Indices: 25054922--25055267 Score: 130
Period size: 27 Copynumber: 12.9 Consensus size: 26
25054912 ATACTACAAA
* *
25054922 GGTATTTCGGTAAGTTTT-CACGATAAG
1 GGTATTTCGATAA-TTTTACA-AATAAG
*
25054949 GGTATTTCGATAATTTTACAAATATGG
1 GGTATTTCGATAATTTTACAAATA-AG
* * ** * *
25054976 GGTGTTTCGGTGGTTTTACAAGTCAAA
1 GGTATTTCGATAATTTTACAAAT-AAG
25055003 GGTATTTCGATAATTTTACAAATAGAG
1 GGTATTTCGATAATTTTACAAATA-AG
* * * *
25055030 GGTGTTCCTG-TAATATTACAAATCAAT
1 GGTATTTC-GATAATTTTACAAAT-AAG
* * *
25055057 GGTGTTTCAATAATTTTACAAATCGAG
1 GGTATTTCGATAATTTTACAAAT-AAG
* * **
25055084 GGTGTTT-TAGTAATTTCCCAAATCGAA-
1 GGTATTTCGA-TAATTTTACAAAT--AAG
* * * *
25055111 GGTATTTTGGTAATTTTTCAAATCGAG
1 GGTATTTCGATAATTTTACAAAT-AAG
* *
25055138 GGTATTT-TAGTAATTTTAC-AATCGAG
1 GGTATTTCGA-TAATTTTACAAAT-AAG
*
25055164 GGTATTTCGATAATTTTATAAATTGAA-
1 GGTATTTCGATAATTTTACAAA-T-AAG
* * *
25055191 GGTATTTTGATAATTTTTCAAATTGAG
1 GGTATTTCGATAATTTTACAAA-TAAG
* * * * *
25055218 AGTGTTTCAATAATTTGACAAATCAAA
1 GGTATTTCGATAATTTTACAAAT-AAG
* * * *
25055245 GGTGTTTCGGTAAATTTAAAAAT
1 GGTATTTCGATAATTTTACAAAT
25055268 CGAGGGTGTT
Statistics
Matches: 240, Mismatches: 62, Indels: 34
0.71 0.18 0.10
Matches are distributed among these distances:
26 34 0.14
27 200 0.83
28 6 0.03
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (26 bp):
GGTATTTCGATAATTTTACAAATAAG
Found at i:25054984 original size:54 final size:54
Alignment explanation
Indices: 25054949--25055186 Score: 201
Period size: 54 Copynumber: 4.4 Consensus size: 54
25054939 TCACGATAAG
*
25054949 GGTATTTCGATAATTTTACAAATATG-GGGTGTTTCGGTGGTTTTACAAGTCAAA
1 GGTATTTCGATAATTTTACAAATA-GAGGGTGTTTCGGTAGTTTTACAAGTCAAA
* * * * * *
25055003 GGTATTTCGATAATTTTACAAATAGAGGGTGTTCCTGTAATATTACAAATCAAT
1 GGTATTTCGATAATTTTACAAATAGAGGGTGTTTCGGTAGTTTTACAAGTCAAA
* * * ** * ** * *
25055057 GGTGTTTCAATAATTTTACAAATCGAGGGTGTTTTAGTAATTTCCCAAATCGAA
1 GGTATTTCGATAATTTTACAAATAGAGGGTGTTTCGGTAGTTTTACAAGTCAAA
* * * * * ** * * *
25055111 GGTATTTTGGTAATTTTTCAAATCGAGGGTATTTTAGTAATTTTACAA-TCGAG
1 GGTATTTCGATAATTTTACAAATAGAGGGTGTTTCGGTAGTTTTACAAGTCAAA
*
25055164 GGTATTTCGATAATTTTATAAAT
1 GGTATTTCGATAATTTTACAAAT
25055187 TGAAGGTATT
Statistics
Matches: 152, Mismatches: 31, Indels: 3
0.82 0.17 0.02
Matches are distributed among these distances:
53 24 0.16
54 128 0.84
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (54 bp):
GGTATTTCGATAATTTTACAAATAGAGGGTGTTTCGGTAGTTTTACAAGTCAAA
Found at i:25055161 original size:26 final size:27
Alignment explanation
Indices: 25055013--25055274 Score: 172
Period size: 27 Copynumber: 9.7 Consensus size: 27
25055003 GGTATTTCGA
* * *
25055013 TAATTTTACAAATAGAGGGTGTTCCT-G
1 TAATTTTACAAATCGAGGGTATT-TTAG
* * * * * *
25055040 TAATATTACAAATCAATGGTGTTTCAA
1 TAATTTTACAAATCGAGGGTATTTTAG
*
25055067 TAATTTTACAAATCGAGGGTGTTTTAG
1 TAATTTTACAAATCGAGGGTATTTTAG
** * *
25055094 TAATTTCCCAAATCGAAGGTATTTTGG
1 TAATTTTACAAATCGAGGGTATTTTAG
*
25055121 TAATTTTTCAAATCGAGGGTATTTTAG
1 TAATTTTACAAATCGAGGGTATTTTAG
*
25055148 TAATTTTAC-AATCGAGGGTA-TTTCG
1 TAATTTTACAAATCGAGGGTATTTTAG
* * *
25055173 ATAATTTTATAAATTGAAGGTATTTT-G
1 -TAATTTTACAAATCGAGGGTATTTTAG
* * * * * *
25055200 ATAATTTTTCAAATTGAGAGTGTTTCAA
1 -TAATTTTACAAATCGAGGGTATTTTAG
* * * * **
25055228 TAATTTGACAAATCAAAGGTGTTTCGG
1 TAATTTTACAAATCGAGGGTATTTTAG
* *
25055255 TAAATTTAAAAATCGAGGGT
1 TAATTTTACAAATCGAGGGT
25055275 GTTTCAAAAA
Statistics
Matches: 184, Mismatches: 46, Indels: 10
0.77 0.19 0.04
Matches are distributed among these distances:
25 4 0.02
26 19 0.10
27 158 0.86
28 3 0.02
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.39
Consensus pattern (27 bp):
TAATTTTACAAATCGAGGGTATTTTAG
Found at i:25055232 original size:80 final size:80
Alignment explanation
Indices: 25055058--25055238 Score: 220
Period size: 80 Copynumber: 2.2 Consensus size: 80
25055048 CAAATCAATG
* * * *
25055058 GTGTTTCAATAATTTTACAAATCGAGGGTGTTTTAGTAATTTCCCAAATCGAAGGTATTTTGGTA
1 GTGTTTCAATAATTTTAC-AATCGAGGGTATTTGAGTAATTTCACAAATCGAAGGTATTTTGATA
*
25055123 ATTTTTCAAATCGAGG
65 ATTTTTCAAATCGAGA
* * * * * *
25055139 GTATTTTAGTAATTTTACAATCGAGGGTATTTCGA-TAATTTTATAAATTGAAGGTATTTTGATA
1 GTGTTTCAATAATTTTACAATCGAGGGTATTT-GAGTAATTTCACAAATCGAAGGTATTTTGATA
*
25055203 ATTTTTCAAATTGAGA
65 ATTTTTCAAATCGAGA
*
25055219 GTGTTTCAATAATTTGACAA
1 GTGTTTCAATAATTTTACAA
25055239 ATCAAAGGTG
Statistics
Matches: 83, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
80 67 0.81
81 16 0.19
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.42
Consensus pattern (80 bp):
GTGTTTCAATAATTTTACAATCGAGGGTATTTGAGTAATTTCACAAATCGAAGGTATTTTGATAA
TTTTTCAAATCGAGA
Found at i:25055297 original size:18 final size:18
Alignment explanation
Indices: 25055258--25055298 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
25055248 GTTTCGGTAA
25055258 ATTT-AAAAATCGAGGGT
1 ATTTCAAAAATCGAGGGT
*
25055275 GTTTCAAAAATCG-GTGGT
1 ATTTCAAAAATCGAG-GGT
25055293 ATTTCA
1 ATTTCA
25055299 GTAATTTCTC
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.34, C:0.10, G:0.22, T:0.34
Consensus pattern (18 bp):
ATTTCAAAAATCGAGGGT
Found at i:25060708 original size:24 final size:24
Alignment explanation
Indices: 25060668--25060750 Score: 105
Period size: 24 Copynumber: 3.4 Consensus size: 24
25060658 CTGGAGGCCT
*
25060668 AGCCTCTTTTAAT-AACTGGGGCAA
1 AGCC-CTTTTGATAAACTGGGGCAA
*
25060692 AGCCCTTTTGATAAACTGGGGTAA
1 AGCCCTTTTGATAAACTGGGGCAA
* *
25060716 AGCCCTTTTCGATAAATTAGGGCAA
1 AGCCCTTTT-GATAAACTGGGGCAA
25060741 AGCCCTTTTG
1 AGCCCTTTTG
25060751 CACTTCCTTC
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
23 7 0.13
24 24 0.46
25 21 0.40
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (24 bp):
AGCCCTTTTGATAAACTGGGGCAA
Found at i:25060808 original size:10 final size:10
Alignment explanation
Indices: 25060795--25060833 Score: 60
Period size: 10 Copynumber: 3.8 Consensus size: 10
25060785 ATATATGAAT
*
25060795 ATATCATGAC
1 ATATCATGGC
25060805 ATATCATGTGC
1 ATATCATG-GC
25060816 ATATCATGGC
1 ATATCATGGC
25060826 ATATCATG
1 ATATCATG
25060834 TATAAAATAG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
10 18 0.67
11 9 0.33
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.33
Consensus pattern (10 bp):
ATATCATGGC
Found at i:25060820 original size:21 final size:21
Alignment explanation
Indices: 25060795--25060834 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
25060785 ATATATGAAT
25060795 ATATCATGACATATCATGTGC
1 ATATCATGACATATCATGTGC
*
25060816 ATATCATGGCATATCATGT
1 ATATCATGACATATCATGT
25060835 ATAAAATAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (21 bp):
ATATCATGACATATCATGTGC
Found at i:25060901 original size:25 final size:25
Alignment explanation
Indices: 25060873--25060920 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
25060863 ATAACATATC
*
25060873 CCTAGGGGCATAATGGCCATTTTTA
1 CCTAGGGGCAAAATGGCCATTTTTA
*
25060898 CCTAGGGGCAAAATGGTCATTTT
1 CCTAGGGGCAAAATGGCCATTTT
25060921 CACATTATAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (25 bp):
CCTAGGGGCAAAATGGCCATTTTTA
Found at i:25064877 original size:34 final size:34
Alignment explanation
Indices: 25064834--25064900 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
25064824 TAGTTTTAGT
* *
25064834 TGGGCCTTAGGCC-ATTACAGTACCAGTATCAGTG
1 TGGGCCTTAGCCCAATT-CAGTAACAGTATCAGTG
*
25064868 TGGGCCTTAGCCCAATTTAGTAACAGTATCAGT
1 TGGGCCTTAGCCCAATTCAGTAACAGTATCAGT
25064901 ATCAGTACAG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 26 0.90
35 3 0.10
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.28
Consensus pattern (34 bp):
TGGGCCTTAGCCCAATTCAGTAACAGTATCAGTG
Done.