Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167893.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_16, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 22157061
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 74000 characters in sequence are not A, C, G, or T
File 67 of 113
Found at i:15716399 original size:5 final size:5
Alignment explanation
Indices: 15716391--15716432 Score: 61
Period size: 5 Copynumber: 8.8 Consensus size: 5
15716381 AAATGGGTTA
*
15716391 AAAAT AAAAT AAAAT AAAAT -CAA- AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
15716433 AACTTACAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
4 4 0.12
5 29 0.88
ACGTcount: A:0.81, C:0.02, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:15716419 original size:18 final size:17
Alignment explanation
Indices: 15716396--15716434 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 17
15716386 GGTTAAAAAT
15716396 AAAATAAAATAAAATCAA
1 AAAATAAAATAAAAT-AA
15716414 AAAATAAAATAAAATAA
1 AAAATAAAATAAAATAA
15716431 AAAA
1 AAAA
15716435 CTTACAATTG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (17 bp):
AAAATAAAATAAAATAA
Found at i:15717249 original size:13 final size:13
Alignment explanation
Indices: 15717228--15717275 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 13
15717218 CATACAGATC
*
15717228 AGAACAAAAAAAA
1 AGAAAAAAAAAAA
*
15717241 AG-AAAAAAAGAA
1 AGAAAAAAAAAAA
*
15717253 AGAAAAAAATAAA
1 AGAAAAAAAAAAA
*
15717266 ATAAAAAAAA
1 AGAAAAAAAA
15717276 TAATAATAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
12 10 0.36
13 18 0.64
ACGTcount: A:0.85, C:0.02, G:0.08, T:0.04
Consensus pattern (13 bp):
AGAAAAAAAAAAA
Found at i:15717254 original size:12 final size:11
Alignment explanation
Indices: 15717233--15717275 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 11
15717223 AGATCAGAAC
15717233 AAAAAAAAAGA
1 AAAAAAAAAGA
15717244 AAAAAAGAAAGA
1 AAAAAA-AAAGA
15717256 AAAAAATAAA-A
1 AAAAAA-AAAGA
15717267 TAAAAAAAA
1 -AAAAAAAA
15717276 TAATAATAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
11 9 0.31
12 20 0.69
ACGTcount: A:0.88, C:0.00, G:0.07, T:0.05
Consensus pattern (11 bp):
AAAAAAAAAGA
Found at i:15717266 original size:17 final size:17
Alignment explanation
Indices: 15717234--15717281 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
15717224 GATCAGAACA
* *
15717234 AAAAAAAAGAAAAAAAG
1 AAAAAAAATAATAAAAG
*
15717251 AAAGAAAAA-AATAAAAT
1 AAA-AAAAATAATAAAAG
15717268 AAAAAAAATAATAA
1 AAAAAAAATAATAA
15717282 TAATAATAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 5 0.19
17 17 0.63
18 5 0.19
ACGTcount: A:0.85, C:0.00, G:0.06, T:0.08
Consensus pattern (17 bp):
AAAAAAAATAATAAAAG
Found at i:15717272 original size:14 final size:15
Alignment explanation
Indices: 15717255--15717284 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
15717245 AAAAAGAAAG
15717255 AAAAAAATAA-AATA
1 AAAAAAATAATAATA
15717269 AAAAAAATAATAATA
1 AAAAAAATAATAATA
15717284 A
1 A
15717285 TAATAGTGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (15 bp):
AAAAAAATAATAATA
Found at i:15717409 original size:3 final size:3
Alignment explanation
Indices: 15717353--15717396 Score: 65
Period size: 3 Copynumber: 15.0 Consensus size: 3
15717343 AAGAAAACAA
15717353 AAT AAT AAT AAT AAT -AT AAT AAT AA- ATAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT
15717397 GACATTAATA
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
2 3 0.08
3 34 0.89
4 1 0.03
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:15718993 original size:18 final size:18
Alignment explanation
Indices: 15718955--15718995 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
15718945 TCTGCCCTTT
*
15718955 TTTTTATTTTGTACTTTA
1 TTTTTATTTTGTAATTTA
15718973 TTTTT-TTTTGTAATTTA
1 TTTTTATTTTGTAATTTA
*
15718990 ATTTTA
1 TTTTTA
15718996 ATTGATAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.20, C:0.02, G:0.05, T:0.73
Consensus pattern (18 bp):
TTTTTATTTTGTAATTTA
Found at i:15719007 original size:17 final size:14
Alignment explanation
Indices: 15718976--15719023 Score: 60
Period size: 17 Copynumber: 3.1 Consensus size: 14
15718966 TACTTTATTT
15718976 TTTTTTGTAATTTAA
1 TTTTTTGTAA-TTAA
15718991 TTTTAATTGATAATTAA
1 TTTT--TTG-TAATTAA
15719008 TTTTTTGTAATTAA
1 TTTTTTGTAATTAA
15719022 TT
1 TT
15719024 AATTTTTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
14 9 0.30
15 7 0.23
17 11 0.37
18 3 0.10
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.62
Consensus pattern (14 bp):
TTTTTTGTAATTAA
Found at i:15719800 original size:16 final size:16
Alignment explanation
Indices: 15719781--15719818 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
15719771 TAATTATATA
*
15719781 TTAATTTATTATTTTT
1 TTAATATATTATTTTT
*
15719797 TTAAGATATTATTTTT
1 TTAATATATTATTTTT
15719813 TTAATA
1 TTAATA
15719819 ATTTAAGTTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (16 bp):
TTAATATATTATTTTT
Found at i:15727060 original size:3 final size:3
Alignment explanation
Indices: 15727052--15727094 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
15727042 CAACCAGTGT
15727052 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
15727095 GTTTTAATGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:15727452 original size:15 final size:14
Alignment explanation
Indices: 15727434--15727481 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 14
15727424 TTCAAATTTT
15727434 TAGGTTTAAGGATTC
1 TAGGTTTAA-GATTC
*
15727449 TAGGTTTGAAGTTTC
1 TAGGTTT-AAGATTC
*
15727464 TGGGTTTACAGATTC
1 TAGGTTTA-AGATTC
15727479 TAG
1 TAG
15727482 ATTGAAAGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
14 1 0.04
15 24 0.89
16 2 0.07
ACGTcount: A:0.23, C:0.08, G:0.27, T:0.42
Consensus pattern (14 bp):
TAGGTTTAAGATTC
Found at i:15727453 original size:30 final size:30
Alignment explanation
Indices: 15727419--15727481 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
15727409 TTAGCATTTA
*
15727419 TAGGTTTCAAATTTTTAGGTTTA-AGGATTC
1 TAGGTTTCAAATTTCTAGGTTTACA-GATTC
* * *
15727449 TAGGTTTGAAGTTTCTGGGTTTACAGATTC
1 TAGGTTTCAAATTTCTAGGTTTACAGATTC
15727479 TAG
1 TAG
15727482 ATTGAAAGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 27 0.96
31 1 0.04
ACGTcount: A:0.24, C:0.08, G:0.24, T:0.44
Consensus pattern (30 bp):
TAGGTTTCAAATTTCTAGGTTTACAGATTC
Found at i:15727491 original size:30 final size:30
Alignment explanation
Indices: 15727436--15727492 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
15727426 CAAATTTTTA
*
15727436 GGTTTAAGGATTCTAGGTTTGAAGTTTCTG
1 GGTTTAAGGATTCTAGGATTGAAGTTTCTG
15727466 GGTTTACA-GATTCTA-GATTGAAAGTTT
1 GGTTTA-AGGATTCTAGGATTG-AAGTTT
15727493 GAGAGTTTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
29 4 0.17
30 19 0.79
31 1 0.04
ACGTcount: A:0.25, C:0.07, G:0.26, T:0.42
Consensus pattern (30 bp):
GGTTTAAGGATTCTAGGATTGAAGTTTCTG
Found at i:15727876 original size:5 final size:5
Alignment explanation
Indices: 15727839--15727922 Score: 59
Period size: 5 Copynumber: 16.4 Consensus size: 5
15727829 CCGAATTGCA
* *
15727839 TATTT T-TTT TATTT TGTTT TCA-TT T-TTT GATTT TATTT T-TTT ACTATTT
1 TATTT TATTT TATTT TATTT T-ATTT TATTT TATTT TATTT TATTT --TATTT
*
15727888 TATTTT TAAGCTT TATTT TATTT TATTT TATTT TA
1 TA-TTT T-A-TTT TATTT TATTT TATTT TATTT TA
15727923 CTACCTTTTA
Statistics
Matches: 63, Mismatches: 7, Indels: 18
0.72 0.08 0.20
Matches are distributed among these distances:
4 9 0.14
5 41 0.65
6 6 0.10
7 7 0.11
ACGTcount: A:0.18, C:0.04, G:0.04, T:0.75
Consensus pattern (5 bp):
TATTT
Found at i:15734143 original size:5 final size:5
Alignment explanation
Indices: 15734135--15734235 Score: 59
Period size: 5 Copynumber: 20.2 Consensus size: 5
15734125 TCTTTTTTCC
* * *
15734135 ATTTT ATTTT -TATTT -TTTG ATTTA ATTTG ATTTT AATTTT AATTTT
1 ATTTT ATTTT AT-TTT ATTTT ATTTT ATTTT ATTTT -ATTTT -ATTTT
* * * *
15734181 -TTGCT ATTTT ATTTT ACTTT ATTTT -TAATT ATTTT ATTTT ATTTT ACTTT
1 ATT-TT ATTTT ATTTT ATTTT ATTTT AT-TTT ATTTT ATTTT ATTTT ATTTT
15734231 -TTTT A
1 ATTTT A
15734236 AATTGAGTAA
Statistics
Matches: 76, Mismatches: 12, Indels: 16
0.73 0.12 0.15
Matches are distributed among these distances:
4 9 0.12
5 53 0.70
6 14 0.18
ACGTcount: A:0.22, C:0.03, G:0.03, T:0.72
Consensus pattern (5 bp):
ATTTT
Found at i:15737272 original size:61 final size:60
Alignment explanation
Indices: 15737180--15737384 Score: 182
Period size: 61 Copynumber: 3.4 Consensus size: 60
15737170 ATCTTAAATC
* * * *
15737180 AGTCTAGATCATCTTTCTAACTAGCGGTTTGATCTCGATCACTTGTTTTC-ATTCTCGGCTT
1 AGTCTAGATCATCTTTCTGACTA-TGATTTGATCTCGATCACTTGCTTTCGA-TCTCGGCTT
* * * * *
15737241 AGTCTAGATCATCTTTTTGACTCATGATTTGATTTCTATTACTTGCTTTCGATCTTGGCTT
1 AGTCTAGATCATCTTTCTGACT-ATGATTTGATCTCGATCACTTGCTTTCGATCTCGGCTT
* * * * *
15737302 AATCTAGATTAT-TGTTCTGACTTATGATTTGATCTCGATCACTTACTTTCAATCTCAGC-T
1 AGTCTAGATCATCT-TTCTGAC-TATGATTTGATCTCGATCACTTGCTTTCGATCTCGGCTT
* * *
15737362 CGATCTAGGTCATCTGTCTGACT
1 AG-TCTAGATCATCTTTCTGACT
15737385 CGTGGTTTGA
Statistics
Matches: 114, Mismatches: 24, Indels: 13
0.75 0.16 0.09
Matches are distributed among these distances:
60 3 0.03
61 107 0.94
62 4 0.04
ACGTcount: A:0.20, C:0.21, G:0.15, T:0.44
Consensus pattern (60 bp):
AGTCTAGATCATCTTTCTGACTATGATTTGATCTCGATCACTTGCTTTCGATCTCGGCTT
Found at i:15737958 original size:3 final size:3
Alignment explanation
Indices: 15737950--15738052 Score: 125
Period size: 3 Copynumber: 34.3 Consensus size: 3
15737940 AACTAGTGTT
*
15737950 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * * * *
15737998 TTA TTA TTA TTG TTG TTG TTG TTG TTG TTA TTG TTA TTG TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
15738046 TTA TTA T
1 TTA TTA T
15738053 ATTTTAATGA
Statistics
Matches: 92, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 92 1.00
ACGTcount: A:0.25, C:0.01, G:0.08, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:15738877 original size:19 final size:19
Alignment explanation
Indices: 15738855--15738902 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 19
15738845 GGTTTTTCTT
*
15738855 TTTTCATTTTATTTT-CATA
1 TTTTGATTTTATTTTGC-TA
15738874 TTTTGATTTTATTTTGCTA
1 TTTTGATTTTATTTTGCTA
15738893 TTTTGATTTT
1 TTTTGATTTT
15738903 TTTGTTATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 26 0.96
20 1 0.04
ACGTcount: A:0.17, C:0.06, G:0.06, T:0.71
Consensus pattern (19 bp):
TTTTGATTTTATTTTGCTA
Found at i:15739879 original size:18 final size:18
Alignment explanation
Indices: 15739856--15739898 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
15739846 TAAATTTTTC
* * *
15739856 TTTTGTTCTTTTTTTCTT
1 TTTTGTTCTTTGTTTATA
15739874 TTTTGTTCTTTGTTTATA
1 TTTTGTTCTTTGTTTATA
15739892 TTTTGTT
1 TTTTGTT
15739899 TAGTTATTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.05, C:0.07, G:0.09, T:0.79
Consensus pattern (18 bp):
TTTTGTTCTTTGTTTATA
Found at i:15749670 original size:44 final size:44
Alignment explanation
Indices: 15749604--15749700 Score: 126
Period size: 44 Copynumber: 2.2 Consensus size: 44
15749594 TACTTTGCTT
* * *
15749604 AAAAAAAAGTTCAAGTTAAAAACC-CAAAAGGACGGCTTGAA-CAA
1 AAAAAAAAATTCAAGTTAAAAACCAAAAAAGG-CAGCTT-AAGCAA
*
15749648 AAAAAAAAATTCAAGTTGAAAACCAAAAAAGGCAGCTTAAGCAA
1 AAAAAAAAATTCAAGTTAAAAACCAAAAAAGGCAGCTTAAGCAA
15749692 AAAAAAAAA
1 AAAAAAAAA
15749701 GGAAAAGTTC
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
43 2 0.04
44 39 0.83
45 6 0.13
ACGTcount: A:0.61, C:0.13, G:0.13, T:0.12
Consensus pattern (44 bp):
AAAAAAAAATTCAAGTTAAAAACCAAAAAAGGCAGCTTAAGCAA
Found at i:15750518 original size:61 final size:60
Alignment explanation
Indices: 15750419--15750605 Score: 225
Period size: 60 Copynumber: 3.1 Consensus size: 60
15750409 CATTGCATTA
* * *
15750419 TCACTTGTTTTTATCTCGACTCAG-TCTAGATCATCTTTTTGACTTGTGATTTCATCTCGG
1 TCACTTGTTTTTATCTCGACTTAGTTC-AGATCATCTTTTTGACTTGTGGTTTGATCTCGG
* * * *
15750479 TCACTTGTTTTTGATCTCAACTTAGTTCAAATAATCTTTTTGACTTGTGGTTTGATCTCGA
1 TCACTTGTTTTT-ATCTCGACTTAGTTCAGATCATCTTTTTGACTTGTGGTTTGATCTCGG
* * * * *
15750540 T-ACTTGCTTTTTATCTTGACTTAGTTCAGATCATCTCTCTGACTTGTGGTTTGATCCCAG
1 TCACTTG-TTTTTATCTCGACTTAGTTCAGATCATCTTTTTGACTTGTGGTTTGATCTCGG
15750600 TCACTT
1 TCACTT
15750606 ACTTTCTATC
Statistics
Matches: 107, Mismatches: 16, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
60 57 0.53
61 48 0.45
62 2 0.02
ACGTcount: A:0.18, C:0.20, G:0.15, T:0.47
Consensus pattern (60 bp):
TCACTTGTTTTTATCTCGACTTAGTTCAGATCATCTTTTTGACTTGTGGTTTGATCTCGG
Found at i:15750642 original size:61 final size:59
Alignment explanation
Indices: 15750419--15750643 Score: 177
Period size: 61 Copynumber: 3.7 Consensus size: 59
15750409 CATTGCATTA
* * * * * * *
15750419 TCACTTGTTTTTATC-TCGACTCAGTCTAGATCATCTTTTTGACTTGTGATTTCATCTCGG
1 TCACTTCTTTTTATCTTAG-CTCAGTCCAAATCATCTTTCTGACTTGTGGTTTGATCTC-G
* * * * * * *
15750479 TCACTTGTTTTTGATCTCAACTTAGTTCAAATAATCTTTTTGACTTGTGGTTTGATCTCG
1 TCACTTCTTTTT-ATCTTAGCTCAGTCCAAATCATCTTTCTGACTTGTGGTTTGATCTCG
* * * * *
15750539 AT-ACTTGCTTTTTATCTT-GACTTAGTTCAGATCATCTCTCTGACTTGTGGTTTGATCCCAG
1 -TCACTT-CTTTTTATCTTAG-CTCAGTCCAAATCATCTTTCTGACTTGTGGTTTGATCTC-G
*
15750600 TCACTTACTTTCTATCTTAGCTCAGTCCAAATCATCTTTCTGAC
1 TCACTT-CTTTTTATCTTAGCTCAGTCCAAATCATCTTTCTGAC
15750644 ATGCAATTTG
Statistics
Matches: 133, Mismatches: 24, Indels: 15
0.77 0.14 0.09
Matches are distributed among these distances:
60 56 0.42
61 76 0.57
62 1 0.01
ACGTcount: A:0.19, C:0.22, G:0.14, T:0.45
Consensus pattern (59 bp):
TCACTTCTTTTTATCTTAGCTCAGTCCAAATCATCTTTCTGACTTGTGGTTTGATCTCG
Found at i:15750943 original size:55 final size:55
Alignment explanation
Indices: 15750865--15751018 Score: 127
Period size: 55 Copynumber: 2.8 Consensus size: 55
15750855 ATCTCAACTT
* * **
15750865 AGTCTAGAT-AATTTTTCGAACTTGCAGTTCAATCTCAGTTGTTTGATCTTGGCTTG
1 AGTCTAGATCATTTTTTTG-ACTTGCAGTTCAATCTCAGTTGTTCAATCTTGG-TTG
* * * *
15750921 A-TCTAGATCATTTTTTTGACTTG-TGATTCAAT-TCCAATCGTTCAATCTTGGTTT
1 AGTCTAGATCATTTTTTTGACTTGCAG-TTCAATCT-CAGTTGTTCAATCTTGGTTG
* *** *
15750975 AGTCTCGATCATTTTTTTGACCAACAGTTCAATCTTAGTTGTTC
1 AGTCTAGATCATTTTTTTGACTTGCAGTTCAATCTCAGTTGTTC
15751019 GTCTCGACTC
Statistics
Matches: 76, Mismatches: 16, Indels: 13
0.72 0.15 0.12
Matches are distributed among these distances:
54 5 0.07
55 61 0.80
56 10 0.13
ACGTcount: A:0.22, C:0.18, G:0.16, T:0.45
Consensus pattern (55 bp):
AGTCTAGATCATTTTTTTGACTTGCAGTTCAATCTCAGTTGTTCAATCTTGGTTG
Found at i:15752178 original size:18 final size:18
Alignment explanation
Indices: 15752157--15752253 Score: 51
Period size: 18 Copynumber: 5.4 Consensus size: 18
15752147 GCTTTTTTGC
15752157 ATTTTACTTTTATTTTTT
1 ATTTTACTTTTATTTTTT
* *
15752175 ATTTTAGTTTGATTTTATT
1 ATTTTACTTTTATTTT-TT
* *
15752194 CTTTTTGCTATTT-TTATTTT
1 -ATTTTACT-TTTATT-TTTT
**
15752214 -TTAAAC-TTTA--TTTT
1 ATTTTACTTTTATTTTTT
* *
15752228 ATTTTAGTTTTATATTTT
1 ATTTTACTTTTATTTTTT
15752246 ATTTTACT
1 ATTTTACT
15752254 GATTTTTTAA
Statistics
Matches: 57, Mismatches: 13, Indels: 18
0.65 0.15 0.20
Matches are distributed among these distances:
14 4 0.07
15 3 0.05
16 7 0.12
18 28 0.49
19 2 0.04
20 9 0.16
21 4 0.07
ACGTcount: A:0.20, C:0.05, G:0.04, T:0.71
Consensus pattern (18 bp):
ATTTTACTTTTATTTTTT
Found at i:15753562 original size:22 final size:21
Alignment explanation
Indices: 15753522--15753563 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
15753512 TGTGCACCCA
* *
15753522 TCTTTTTTTTCTTCTGTTTCT
1 TCTTTTTTTTCTGCCGTTTCT
15753543 TCTTTTTTTTGCTGCCGTTTC
1 TCTTTTTTTT-CTGCCGTTTC
15753564 CCTCTTTTCT
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:0.00, C:0.21, G:0.10, T:0.69
Consensus pattern (21 bp):
TCTTTTTTTTCTGCCGTTTCT
Found at i:15756534 original size:20 final size:19
Alignment explanation
Indices: 15756509--15756640 Score: 78
Period size: 20 Copynumber: 6.9 Consensus size: 19
15756499 TACAAGAATG
*
15756509 TCATGCAAATATTTTAATTA
1 TCATGCAAATA-TATAATTA
*
15756529 TCATGC-AATA-ATAATAA
1 TCATGCAAATATATAATTA
**
15756546 TCATATAAATATATAA-TA
1 TCATGCAAATATATAATTA
* *
15756564 TTATGTAAATATATTAATTA
1 TCATGCAAATATA-TAATTA
*
15756584 TCATGC-AATAATATAA-AA
1 TCATGCAAAT-ATATAATTA
*
15756602 TGCCATGC-AATAATATAAAATA
1 T--CATGCAAAT-ATAT-AATTA
*
15756624 CCATGCAAATATATAAT
1 TCATGCAAATATATAAT
15756641 CATGAAATCA
Statistics
Matches: 89, Mismatches: 13, Indels: 21
0.72 0.11 0.17
Matches are distributed among these distances:
17 9 0.10
18 18 0.20
19 19 0.21
20 37 0.42
21 5 0.06
22 1 0.01
ACGTcount: A:0.49, C:0.10, G:0.05, T:0.36
Consensus pattern (19 bp):
TCATGCAAATATATAATTA
Found at i:15756636 original size:18 final size:20
Alignment explanation
Indices: 15756585--15756631 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
15756575 TATTAATTAT
*
15756585 CATGCAATAATATAAAATGC
1 CATGCAATAATATAAAATAC
15756605 CATGCAATAATATAAAATAC
1 CATGCAATAATATAAAATAC
15756625 CATGCAA
1 CATGCAA
15756632 ATATATAATC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.51, C:0.17, G:0.09, T:0.23
Consensus pattern (20 bp):
CATGCAATAATATAAAATAC
Found at i:15756727 original size:24 final size:25
Alignment explanation
Indices: 15756699--15756754 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 25
15756689 AATATACAAT
15756699 AATAATATTG-CAATCACACAAATA
1 AATAATATTGACAATCACACAAATA
* **
15756723 AATAA-ATTGATAATCATGCAAATA
1 AATAATATTGACAATCACACAAATA
15756747 AATTAATA
1 AA-TAATA
15756755 ATCATGCAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 4 0.15
24 18 0.69
25 3 0.12
26 1 0.04
ACGTcount: A:0.55, C:0.11, G:0.05, T:0.29
Consensus pattern (25 bp):
AATAATATTGACAATCACACAAATA
Found at i:15756747 original size:20 final size:20
Alignment explanation
Indices: 15756722--15756914 Score: 135
Period size: 20 Copynumber: 10.2 Consensus size: 20
15756712 TCACACAAAT
*
15756722 AAATAAATTGATAATCATGC
1 AAATAAATTAATAATCATGC
15756742 AAATAAATTAATAATCATGC
1 AAATAAATTAATAATCATGC
15756762 AAATAAATTAATAATCATGC
1 AAATAAATTAATAATCATGC
* * * *
15756782 AAACATATCAATAGTCATGC
1 AAATAAATTAATAATCATGC
*
15756802 AAATATATTAATAA--AT-C
1 AAATAAATTAATAATCATGC
* * *
15756819 ACACAAATATACTAATCATGC
1 AAATAAAT-TAATAATCATGC
* *
15756840 -AATAAAATATTAA--A--C
1 AAATAAATTAATAATCATGC
15756855 AAATAAA-T--T-ATCATGC
1 AAATAAATTAATAATCATGC
*
15756871 AAATATAA-TATTAATCATGC
1 AAATA-AATTAATAATCATGC
* *
15756891 AAATATAA-TATTAGTCATGC
1 AAATA-AATTAATAATCATGC
15756911 AAAT
1 AAAT
15756915 TCATGCAAAA
Statistics
Matches: 143, Mismatches: 17, Indels: 26
0.77 0.09 0.14
Matches are distributed among these distances:
12 1 0.01
13 1 0.01
14 1 0.01
15 2 0.01
16 12 0.08
17 10 0.07
18 7 0.05
19 6 0.04
20 102 0.71
21 1 0.01
ACGTcount: A:0.52, C:0.12, G:0.06, T:0.30
Consensus pattern (20 bp):
AAATAAATTAATAATCATGC
Found at i:15756858 original size:32 final size:32
Alignment explanation
Indices: 15756821--15756884 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
15756811 AATAAATCAC
*
15756821 ACAAATATACTAATCATGC-AATAAAATATTAA
1 ACAAATA-AATAATCATGCAAATAAAATATTAA
* *
15756853 ACAAATAAATTATCATGCAAATATAATATTAA
1 ACAAATAAATAATCATGCAAATAAAATATTAA
15756885 TCATGCAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 9 0.32
32 19 0.68
ACGTcount: A:0.56, C:0.11, G:0.03, T:0.30
Consensus pattern (32 bp):
ACAAATAAATAATCATGCAAATAAAATATTAA
Found at i:15757575 original size:14 final size:12
Alignment explanation
Indices: 15757539--15757568 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
15757529 ACTAAAAAAA
15757539 TAAAAATTAAAC
1 TAAAAATTAAAC
15757551 TAAAAATTAAAC
1 TAAAAATTAAAC
15757563 TAAAAA
1 TAAAAA
15757569 AATTAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (12 bp):
TAAAAATTAAAC
Found at i:15757583 original size:12 final size:12
Alignment explanation
Indices: 15757535--15757588 Score: 56
Period size: 12 Copynumber: 4.4 Consensus size: 12
15757525 TTTGACTAAA
15757535 AAAATAAAAATT
1 AAAATAAAAATT
*
15757547 AAACTAAAAATT
1 AAAATAAAAATT
*
15757559 AAACTAAAAAAATT
1 AAA--ATAAAAATT
*
15757573 AAAATATAAA-T
1 AAAATAAAAATT
15757584 AAAAT
1 AAAAT
15757589 TTAGGGCTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
11 6 0.17
12 19 0.54
14 10 0.29
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.24
Consensus pattern (12 bp):
AAAATAAAAATT
Found at i:15759826 original size:16 final size:17
Alignment explanation
Indices: 15759785--15759827 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
15759775 AACTTTTAAA
*
15759785 AATAAAGGCTCTCCCAT
1 AATAAAGGCACTCCCAT
* *
15759802 AACAGAGGCAC-CCCAT
1 AATAAAGGCACTCCCAT
15759818 AATAAAGGCA
1 AATAAAGGCA
15759828 TACAATTTTA
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.42, C:0.28, G:0.16, T:0.14
Consensus pattern (17 bp):
AATAAAGGCACTCCCAT
Found at i:15759887 original size:22 final size:22
Alignment explanation
Indices: 15759822--15759887 Score: 54
Period size: 22 Copynumber: 3.2 Consensus size: 22
15759812 CCCCATAATA
15759822 AAGGCATACAATTTTAAGAAAT
1 AAGGCATACAATTTTAAGAAAT
* * *
15759844 AAGG---GC--TTTTCA-TAAT
1 AAGGCATACAATTTTAAGAAAT
15759860 AGAGGCATACAATTTTAAGAAAT
1 A-AGGCATACAATTTTAAGAAAT
15759883 AAGGC
1 AAGGC
15759888 TTTTTCATAA
Statistics
Matches: 31, Mismatches: 6, Indels: 14
0.61 0.12 0.27
Matches are distributed among these distances:
16 4 0.13
17 8 0.26
19 1 0.03
20 1 0.03
22 13 0.42
23 4 0.13
ACGTcount: A:0.44, C:0.11, G:0.18, T:0.27
Consensus pattern (22 bp):
AAGGCATACAATTTTAAGAAAT
Found at i:15759958 original size:39 final size:39
Alignment explanation
Indices: 15759815--15759955 Score: 178
Period size: 39 Copynumber: 3.6 Consensus size: 39
15759805 AGAGGCACCC
* * *
15759815 CATAATAAAGGCATACAATTTTAAGAAATAAGGGCTTTT
1 CATAATAGAGGCACACAATTTTAAGAAATAAAGGCTTTT
*
15759854 CATAATAGAGGCATACAATTTTAAGAAAT-AAGGCTTTTT
1 CATAATAGAGGCACACAATTTTAAGAAATAAAGGC-TTTT
* * *
15759893 CATAATAGAGGCACATAATTTTAA-AAGTAAAGGCTCCTT
1 CATAATAGAGGCACACAATTTTAAGAAATAAAGGCT-TTT
*
15759932 CATAATAGAGGCACACAACTTTAA
1 CATAATAGAGGCACACAATTTTAA
15759956 AAGCAAGTGC
Statistics
Matches: 91, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
38 8 0.09
39 83 0.91
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.29
Consensus pattern (39 bp):
CATAATAGAGGCACACAATTTTAAGAAATAAAGGCTTTT
Found at i:15759968 original size:78 final size:78
Alignment explanation
Indices: 15759815--15760000 Score: 191
Period size: 78 Copynumber: 2.4 Consensus size: 78
15759805 AGAGGCACCC
* * * * *
15759815 CATAATAAAGGCATACAATTTTAAGAAATAAGGGCTTTTCATAATAGAGGCATACAATTTTAAGA
1 CATAATAAAGGCACACAATTTTAAGAAATAAAGGCTCTTCATAATAGAGGCACACAACTTTAAGA
*
15759880 AATAAGGCTTTTT
66 AACAAGGCTTTTT
* * *
15759893 CATAATAGAGGCACATAATTTTAA-AAGTAAAGGCTCCTTCATAATAGAGGCACACAACTTTAA-
1 CATAATAAAGGCACACAATTTTAAGAAATAAAGGCT-CTTCATAATAGAGGCACACAACTTTAAG
* **
15759956 AAGCAAGTGCTTTCC
65 AAACAAG-GCTTTTT
* *
15759971 CATGATACAA-GCACACAACTTTAA-AAATAA
1 CATAATA-AAGGCACACAATTTTAAGAAATAA
15760001 GGACCCCCTA
Statistics
Matches: 88, Mismatches: 17, Indels: 6
0.79 0.15 0.05
Matches are distributed among these distances:
77 14 0.16
78 73 0.83
79 1 0.01
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.27
Consensus pattern (78 bp):
CATAATAAAGGCACACAATTTTAAGAAATAAAGGCTCTTCATAATAGAGGCACACAACTTTAAGA
AACAAGGCTTTTT
Found at i:15762004 original size:2 final size:2
Alignment explanation
Indices: 15761957--15761991 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
15761947 TATATATATA
15761957 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
15761992 ATGTATTTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:15765300 original size:46 final size:45
Alignment explanation
Indices: 15765228--15765316 Score: 126
Period size: 46 Copynumber: 2.0 Consensus size: 45
15765218 TAAATTTTCT
* * *
15765228 AAGTTGTGGAGCCCCTAATGAGAGGAGCTTTTAGATTTATTTTTAG
1 AAGTTGTGGAGCCCCCAATAAAAGGAGCTTTTAGATTT-TTTTTAG
15765274 AAGTTGTGGA-CCCTCCAATAAAAGGAGCTTTTAGATTTTTTTT
1 AAGTTGTGGAGCCC-CCAATAAAAGGAGCTTTTAGATTTTTTTT
15765317 CAAAAGTGGT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
45 8 0.21
46 31 0.79
ACGTcount: A:0.27, C:0.12, G:0.22, T:0.38
Consensus pattern (45 bp):
AAGTTGTGGAGCCCCCAATAAAAGGAGCTTTTAGATTTTTTTTAG
Found at i:15765413 original size:9 final size:9
Alignment explanation
Indices: 15765401--15765476 Score: 57
Period size: 9 Copynumber: 8.0 Consensus size: 9
15765391 AAAAAATCAT
15765401 AAATTCAAA
1 AAATTCAAA
*
15765410 AAATCCAAA
1 AAATTCAAA
15765419 AAA-T-AAA
1 AAATTCAAA
15765426 ACAATTCAAGA
1 A-AATTCAA-A
*
15765437 AAATTTAAA
1 AAATTCAAA
15765446 AGAAGTTTCAAA
1 A-AA--TTCAAA
*
15765458 AAATTCCAA
1 AAATTCAAA
15765467 AAATATCAAA
1 AAAT-TCAAA
15765477 TCAGAATTTA
Statistics
Matches: 53, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
7 4 0.08
8 2 0.04
9 23 0.43
10 14 0.26
11 4 0.08
12 6 0.11
ACGTcount: A:0.63, C:0.12, G:0.04, T:0.21
Consensus pattern (9 bp):
AAATTCAAA
Found at i:15772599 original size:14 final size:15
Alignment explanation
Indices: 15772580--15772613 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
15772570 TTTATTTTCC
15772580 TTTTTTAAATTTAAT
1 TTTTTTAAATTTAAT
* *
15772595 TTTTTTTATTTTAAT
1 TTTTTTAAATTTAAT
15772610 TTTT
1 TTTT
15772614 ATTTAAATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTTTAAATTTAAT
Found at i:15773181 original size:23 final size:22
Alignment explanation
Indices: 15773132--15773219 Score: 77
Period size: 23 Copynumber: 3.7 Consensus size: 22
15773122 TCTAAATTTG
*
15773132 TTTATTATTCATGAATATAGTTA
1 TTTATTATTTATGAATATA-TTA
*
15773155 TTTATTATTTATGAATATATTCGT
1 TTTATTATTTATGAATATATT--A
* *
15773179 TTATATATATTTATGAACATGTTTA
1 TT-TAT-TATTTATGAATAT-ATTA
*
15773204 TTTAATATTTATGAAT
1 TTTATTATTTATGAAT
15773220 GAATTCATTT
Statistics
Matches: 53, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
22 2 0.04
23 28 0.53
24 4 0.08
25 5 0.09
26 12 0.23
27 2 0.04
ACGTcount: A:0.34, C:0.03, G:0.08, T:0.55
Consensus pattern (22 bp):
TTTATTATTTATGAATATATTA
Found at i:15773207 original size:26 final size:23
Alignment explanation
Indices: 15773132--15773232 Score: 62
Period size: 23 Copynumber: 4.3 Consensus size: 23
15773122 TCTAAATTTG
* * *
15773132 TTTATTATTCATGAATATAGTT-A
1 TTTAATATTTATGAACATA-TTCA
* * *
15773155 TTTATTATTTATGAATATATTCGT
1 TTTAATATTTATGAACATATTC-A
* *
15773179 TTATATATATTTATGAACATGTTTA
1 TT-TA-ATATTTATGAACATATTCA
*
15773204 TTTAATATTTATGAATGA-ATTCA
1 TTTAATATTTATGAA-CATATTCA
15773227 TTTAAT
1 TTTAAT
15773233 TTAAACAAAC
Statistics
Matches: 63, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
22 2 0.03
23 38 0.60
24 5 0.08
25 4 0.06
26 14 0.22
ACGTcount: A:0.35, C:0.04, G:0.08, T:0.53
Consensus pattern (23 bp):
TTTAATATTTATGAACATATTCA
Found at i:15773779 original size:26 final size:24
Alignment explanation
Indices: 15773749--15773811 Score: 65
Period size: 26 Copynumber: 2.5 Consensus size: 24
15773739 TAAAATCTTA
15773749 AATTTCAAATTCATAAATTCTAAA-T
1 AATTT-AAATTCATAAATT-TAAATT
* *
15773774 ATATTTGAAATTTATGAATTTAAATT
1 A-ATTT-AAATTCATAAATTTAAATT
15773800 AATTTAAATTCA
1 AATTTAAATTCA
15773812 AAGTTAAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
24 6 0.19
25 9 0.28
26 17 0.53
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.44
Consensus pattern (24 bp):
AATTTAAATTCATAAATTTAAATT
Found at i:15774426 original size:3 final size:3
Alignment explanation
Indices: 15774418--15774456 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
15774408 TTACAAATGA
15774418 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
15774457 TTGAGCACAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:15775213 original size:30 final size:30
Alignment explanation
Indices: 15775164--15775220 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
15775154 GTTAAAAAAA
15775164 AAAAAAAAAAAGAACTGAAGAAAGTTATTG
1 AAAAAAAAAAAGAACTGAAGAAAGTTATTG
* * *
15775194 AAAAAACAAAGGAATTGAAGAAAGTTA
1 AAAAAAAAAAAGAACTGAAGAAAGTTA
15775221 AACAAATTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.63, C:0.04, G:0.18, T:0.16
Consensus pattern (30 bp):
AAAAAAAAAAAGAACTGAAGAAAGTTATTG
Found at i:15775889 original size:31 final size:31
Alignment explanation
Indices: 15775854--15775913 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
15775844 TAAAATTTTA
*
15775854 TTTATTAATAAAATAATATTATATAATTCAT
1 TTTATTAATAAAATAACATTATATAATTCAT
*
15775885 TTTATTAATAAAATAACATTATCTAATTC
1 TTTATTAATAAAATAACATTATATAATTC
15775914 GGTGATAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (31 bp):
TTTATTAATAAAATAACATTATATAATTCAT
Found at i:15778732 original size:2 final size:2
Alignment explanation
Indices: 15778727--15778758 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
15778717 ACTGGTTCCA
*
15778727 AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15778759 TTCATCGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:15782156 original size:3 final size:3
Alignment explanation
Indices: 15782148--15782173 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
15782138 TTAAACAAAA
15782148 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
15782174 CAAATTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:15782273 original size:75 final size:70
Alignment explanation
Indices: 15782144--15782279 Score: 173
Period size: 75 Copynumber: 1.9 Consensus size: 70
15782134 CCCATTAAAC
* * * ** *
15782144 AAAAAATAATAATAATAATAATAATAATAACAAATTAAAATATAATTACAAAACAATAAAATTAA
1 AAAAAATAATAATAAAAATAATAATAATAAAAAAATAAAATATAACAACAAAACAACAAAATTAA
15782209 AAAAT
66 AAAAT
15782214 AAAAAATAATAATTAAGAAATAATAATAATATAAATAAATAAAATATAAACAACAAAACAACAAA
1 AAAAAATAATAA-TAA-AAATAATAATAATA-AAA-AAATAAAATAT-AACAACAAAACAACAAA
15782279 A
61 A
15782280 AAAATTTGAC
Statistics
Matches: 55, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
70 12 0.22
71 3 0.05
72 13 0.24
73 2 0.04
74 10 0.18
75 15 0.27
ACGTcount: A:0.71, C:0.05, G:0.01, T:0.23
Consensus pattern (70 bp):
AAAAAATAATAATAAAAATAATAATAATAAAAAAATAAAATATAACAACAAAACAACAAAATTAA
AAAAT
Found at i:15784076 original size:59 final size:58
Alignment explanation
Indices: 15783958--15784333 Score: 461
Period size: 59 Copynumber: 6.4 Consensus size: 58
15783948 TTGTTTGAAA
*** * *
15783958 TTTTCCTCAAAAACCCTTTTTTGAAATTTTA-TTTTAAGAAAAATTGATACTTTCAAC
1 TTTTCCTCAAAAATATTTTTTTGAAAATTTATTTTTAAGGAAAATTGATACTTTCAAC
15784015 TTTT-CTCCAAAAATATTTTTTTGAAAATTTATTTTTTAAGGAAAATTGATACTTTCAAC
1 TTTTCCT-CAAAAATATTTTTTTGAAAATTTA-TTTTTAAGGAAAATTGATACTTTCAAC
* * * * *
15784074 TTTTCCACAAAAATATTTTTTGGAAACTTTGATTTTCAAGGAAAATTGTTACTTTCAAC
1 TTTTCCTCAAAAATATTTTTTTGAAAATTT-ATTTTTAAGGAAAATTGATACTTTCAAC
** *
15784133 TTTTCCTCAAAAACCTTTTTTTCAAAATTT-TTTTTAAGGAAAATTGATACTTTCAAC
1 TTTTCCTCAAAAATATTTTTTTGAAAATTTATTTTTAAGGAAAATTGATACTTTCAAC
* * * * *
15784190 TTTTCCCCAAAATTTTTTTTTTTTGAAACTTTGATTTTCAAGGAAAATTGATACTTTCAAC
1 TTTTCCTCAAAA--ATATTTTTTTGAAAATTT-ATTTTTAAGGAAAATTGATACTTTCAAC
* *
15784251 TTTTCCTCAAAAACTTTTTTTTTTTGAAAATTTATTTTTAAGAAAAATTGATACTTTCAAC
1 TTTTCCTCAAAAA---TATTTTTTTGAAAATTTATTTTTAAGGAAAATTGATACTTTCAAC
*
15784312 TTTTCCCCAAAAATATTTTTTT
1 TTTTCCTCAAAAATATTTTTTT
15784334 TAATTTTTAT
Statistics
Matches: 275, Mismatches: 32, Indels: 23
0.83 0.10 0.07
Matches are distributed among these distances:
56 2 0.01
57 60 0.22
58 8 0.03
59 112 0.41
60 2 0.01
61 75 0.27
62 16 0.06
ACGTcount: A:0.33, C:0.14, G:0.06, T:0.47
Consensus pattern (58 bp):
TTTTCCTCAAAAATATTTTTTTGAAAATTTATTTTTAAGGAAAATTGATACTTTCAAC
Found at i:15784396 original size:6 final size:6
Alignment explanation
Indices: 15784368--15784454 Score: 58
Period size: 6 Copynumber: 14.7 Consensus size: 6
15784358 ATAATAAAAC
* *
15784368 AAAATA AAAGTG AAAAT- -AAATA AAAATA AAAA-A TAAAAT- AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA -AAAATA AAAATA
* * *
15784413 AAGAAAA GTAAAACA AAAATA AAAAT- AAAATA AAGATA AAAA
1 AA-AATA --AAAATA AAAATA AAAATA AAAATA AAAATA AAAA
15784455 GAATATTAAA
Statistics
Matches: 64, Mismatches: 8, Indels: 18
0.71 0.09 0.20
Matches are distributed among these distances:
4 4 0.06
5 11 0.17
6 41 0.64
7 3 0.05
8 3 0.05
9 2 0.03
ACGTcount: A:0.78, C:0.01, G:0.06, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:15784400 original size:17 final size:18
Alignment explanation
Indices: 15784357--15784454 Score: 87
Period size: 17 Copynumber: 5.4 Consensus size: 18
15784347 AAGAAAATAG
*
15784357 AATAATAAAACAAAATAAA
1 AATAA-AAAATAAAATAAA
* *
15784376 AGT-GAAAAT-AAATAAA
1 AATAAAAAATAAAATAAA
15784392 AATAAAAAATAAAAT-AA
1 AATAAAAAATAAAATAAA
*
15784409 AATAAAGAAAAGTAAAACAAA
1 AAT-AA-AAAA-TAAAATAAA
15784430 AAT-AAAAATAAAATAAA
1 AATAAAAAATAAAATAAA
*
15784447 GATAAAAA
1 AATAAAAA
15784455 GAATATTAAA
Statistics
Matches: 64, Mismatches: 8, Indels: 15
0.74 0.09 0.17
Matches are distributed among these distances:
16 9 0.14
17 24 0.38
18 14 0.22
19 7 0.11
20 5 0.08
21 5 0.08
ACGTcount: A:0.78, C:0.02, G:0.05, T:0.15
Consensus pattern (18 bp):
AATAAAAAATAAAATAAA
Found at i:15784405 original size:5 final size:5
Alignment explanation
Indices: 15784360--15784453 Score: 70
Period size: 5 Copynumber: 18.4 Consensus size: 5
15784350 AAAATAGAAT
* *
15784360 AATAA AACAA AATAA AAGTGAA AAT-A AATAA AA-AT AA-AA AATAA AATAA
1 AATAA AATAA AATAA AA-T-AA AATAA AATAA AATAA AATAA AATAA AATAA
* *
15784409 AATAA AGA-AA AGTAA AACAAA AATAAA AATAA AATAA AGATAA AA
1 AATAA A-ATAA AATAA AA-TAA AAT-AA AATAA AATAA A-ATAA AA
15784454 AGAATATTAA
Statistics
Matches: 72, Mismatches: 8, Indels: 18
0.73 0.08 0.18
Matches are distributed among these distances:
4 10 0.14
5 41 0.57
6 17 0.24
7 4 0.06
ACGTcount: A:0.78, C:0.02, G:0.05, T:0.15
Consensus pattern (5 bp):
AATAA
Found at i:15785400 original size:24 final size:22
Alignment explanation
Indices: 15785344--15785454 Score: 109
Period size: 24 Copynumber: 4.8 Consensus size: 22
15785334 AAAAGAAATT
*
15785344 TAAT-AGATAATTAGAAAAATAA
1 TAATAAGATAAATA-AAAAATAA
15785366 TAATAAGATAAATAAAAAATAA
1 TAATAAGATAAATAAAAAATAA
15785388 TATTATAAGATAAATAAAAAATAA
1 TA--ATAAGATAAATAAAAAATAA
* *
15785412 TAATAATA-ACAGATAAATAGATATA
1 TAATAAGATA-A-ATAAA-AAATA-A
*
15785437 TAATTAGATAAATAAAAA
1 TAATAAGATAAATAAAAA
15785455 TACATACAAA
Statistics
Matches: 75, Mismatches: 6, Indels: 15
0.78 0.06 0.16
Matches are distributed among these distances:
21 1 0.01
22 20 0.27
23 14 0.19
24 31 0.41
25 8 0.11
26 1 0.01
ACGTcount: A:0.66, C:0.01, G:0.06, T:0.27
Consensus pattern (22 bp):
TAATAAGATAAATAAAAAATAA
Found at i:15785446 original size:47 final size:46
Alignment explanation
Indices: 15785347--15785454 Score: 121
Period size: 47 Copynumber: 2.3 Consensus size: 46
15785337 AGAAATTTAA
* *
15785347 TAGATAATTAGAAAAATAATAATAAGATAAATAAAAAATAATATTAT
1 TAGATAAATA-AAAAATAATAATAAGATAAATAAAAAATAATATAAT
* * *
15785394 AAGATAAATAAAAAATAATAATAATA-ACAGATAAATAGAT-ATATAAT
1 TAGATAAATAAAAAATAATAATAAGATA-A-ATAAA-AAATAATATAAT
15785441 TAGATAAATAAAAA
1 TAGATAAATAAAAA
15785455 TACATACAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
45 1 0.02
46 16 0.31
47 32 0.62
48 3 0.06
ACGTcount: A:0.66, C:0.01, G:0.06, T:0.27
Consensus pattern (46 bp):
TAGATAAATAAAAAATAATAATAAGATAAATAAAAAATAATATAAT
Found at i:15785581 original size:25 final size:26
Alignment explanation
Indices: 15785514--15785583 Score: 74
Period size: 25 Copynumber: 2.8 Consensus size: 26
15785504 AAATATATAT
* *
15785514 TAATAAATA-ATAATA-ATAAATAAA
1 TAATAAATACATAAAATATAAAGAAA
**
15785538 TAATAAATACATAGGATATAAAGAAA
1 TAATAAATACATAAAATATAAAGAAA
*
15785564 -AATATATACATAAAATATAA
1 TAATAAATACATAAAATATAA
15785584 TAAGAATAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
24 9 0.24
25 21 0.55
26 8 0.21
ACGTcount: A:0.66, C:0.03, G:0.04, T:0.27
Consensus pattern (26 bp):
TAATAAATACATAAAATATAAAGAAA
Found at i:15785792 original size:12 final size:12
Alignment explanation
Indices: 15785777--15785803 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
15785767 CATTTTTTGA
15785777 TTTTTTTTTGTT
1 TTTTTTTTTGTT
15785789 TTTTTTTTTGTT
1 TTTTTTTTTGTT
15785801 TTT
1 TTT
15785804 GACCAAAGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.00, C:0.00, G:0.07, T:0.93
Consensus pattern (12 bp):
TTTTTTTTTGTT
Found at i:15785796 original size:11 final size:11
Alignment explanation
Indices: 15785769--15785803 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
15785759 AACATTTTCA
*
15785769 TTTTTTGATTT
1 TTTTTTGTTTT
15785780 TTTTTTGTTTTT
1 TTTTTTG-TTTT
15785792 TTTTTTGTTTT
1 TTTTTTGTTTT
15785803 T
1 T
15785804 GACCAAAGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 12 0.55
12 10 0.45
ACGTcount: A:0.03, C:0.00, G:0.09, T:0.89
Consensus pattern (11 bp):
TTTTTTGTTTT
Found at i:15785904 original size:41 final size:41
Alignment explanation
Indices: 15785811--15785935 Score: 178
Period size: 41 Copynumber: 3.0 Consensus size: 41
15785801 TTTGACCAAA
* * * * *
15785811 GCTCCTCTAAACAGAGGCTCAACGACTTTGAAAAAATAAATG
1 GCTCCTCTAAACAGAGGCACCACGACTTTG-GAAAGTAAATT
15785853 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
* *
15785894 GCTCCTCTAAATAAAGGCACCACGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
15785935 G
1 G
15785936 ACCACGAATT
Statistics
Matches: 76, Mismatches: 7, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
41 48 0.63
42 28 0.37
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.22
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
Found at i:15785939 original size:24 final size:24
Alignment explanation
Indices: 15785912--15785959 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
15785902 AAATAAAGGC
*
15785912 ACCACGACTTTGGAAAGTAAATTG
1 ACCACGAATTTGGAAAGTAAATTG
15785936 ACCACGAATTTGGAAAGTAAATTG
1 ACCACGAATTTGGAAAGTAAATTG
15785960 TGCCTCTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.40, C:0.15, G:0.21, T:0.25
Consensus pattern (24 bp):
ACCACGAATTTGGAAAGTAAATTG
Found at i:15785977 original size:65 final size:66
Alignment explanation
Indices: 15785871--15786001 Score: 212
Period size: 65 Copynumber: 2.0 Consensus size: 66
15785861 AAACAGAGGC
* *
15785871 ACCACGACTTTGGAAAGTAAATTGCTCCTCTAAATAAAGGCACCACGAC-TTTGGAAAGTAAATT
1 ACCACGAATTTGGAAAGTAAATTGCTCCTCTAAACAAAGGCACCACGACTTTTGGAAAGTAAATT
15785935 G
66 G
*
15785936 ACCACGAATTTGGAAAGTAAATTG-TGCCTCTAAACAGAGGCACCACGACTTTTGGAAAGTAAAT
1 ACCACGAATTTGGAAAGTAAATTGCT-CCTCTAAACAAAGGCACCACGACTTTTGGAAAGTAAAT
15786000 TG
65 TG
15786002 CTCCTCTAAA
Statistics
Matches: 61, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
64 1 0.02
65 44 0.72
66 16 0.26
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.24
Consensus pattern (66 bp):
ACCACGAATTTGGAAAGTAAATTGCTCCTCTAAACAAAGGCACCACGACTTTTGGAAAGTAAATT
G
Found at i:15786048 original size:41 final size:42
Alignment explanation
Indices: 15785936--15786105 Score: 256
Period size: 41 Copynumber: 4.1 Consensus size: 42
15785926 AAGTAAATTG
* *
15785936 ACCACGA-ATTTGGAAAGTAAATTG-TGCCTCTAAACAGAGGC
1 ACCACGACTTTTGAAAAGTAAATTGCT-CCTCTAAACAGAGGC
*
15785977 ACCACGACTTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGC
1 ACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGC
*
15786019 ACCACGAC-TTTGAAAAGTAAGTTGCTCCTCTAAACAGAGGC
1 ACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGC
*
15786060 ACCACGACTTTTGAAAAAGTAAATTGCTCCTCTAAACATAGGC
1 ACCACGACTTTTG-AAAAGTAAATTGCTCCTCTAAACAGAGGC
15786103 ACC
1 ACC
15786106 TCCTCTAAAC
Statistics
Matches: 120, Mismatches: 5, Indels: 6
0.92 0.04 0.05
Matches are distributed among these distances:
41 46 0.38
42 43 0.36
43 31 0.26
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (42 bp):
ACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGC
Found at i:15786110 original size:19 final size:19
Alignment explanation
Indices: 15786086--15786124 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
15786076 AAGTAAATTG
*
15786086 CTCCTCTAAACATAGGCAC
1 CTCCTCTAAACAGAGGCAC
15786105 CTCCTCTAAACAGAGGCAC
1 CTCCTCTAAACAGAGGCAC
15786124 C
1 C
15786125 ACGACTTTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.31, C:0.38, G:0.13, T:0.18
Consensus pattern (19 bp):
CTCCTCTAAACAGAGGCAC
Found at i:15786127 original size:103 final size:103
Alignment explanation
Indices: 15786002--15786208 Score: 387
Period size: 103 Copynumber: 2.0 Consensus size: 103
15785992 AAGTAAATTG
15786002 CTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAGTTGCTCCTCTAAACAGAGGCACCACGA
1 CTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAGTTGCTCCTCTAAACAGAGGCACCACGA
*
15786067 CTTTTGAAAAAGTAAATTGCTCCTCTAAACATAGGCAC
66 CTTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCAC
15786105 CTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAGTTGCTCCTCTAAACAGAGGCACCACGA
1 CTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAGTTGCTCCTCTAAACAGAGGCACCACGA
* *
15786170 CTTTTGGAAAAGTAAGTTGCTCCTCTAAACAGAGGCAC
66 CTTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCAC
15786208 C
1 C
15786209 CCGACTTTGA
Statistics
Matches: 101, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 101 1.00
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.22
Consensus pattern (103 bp):
CTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAGTTGCTCCTCTAAACAGAGGCACCACGA
CTTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCAC
Found at i:15786162 original size:41 final size:42
Alignment explanation
Indices: 15786105--15786362 Score: 346
Period size: 41 Copynumber: 6.1 Consensus size: 42
15786095 ACATAGGCAC
*
15786105 CTCCTCTAAACAGAGGCACCACGAC-TTTGAAAAGTAAGTTG
1 CTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTG
*
15786146 CTCCTCTAAACAGAGGCACCACGACTTTTGGAAAAGTAAGTTG
1 CTCCTCTAAACAGAGGCACCACGACTTTT-GAAAAGTAAATTG
*
15786189 CTCCTCTAAACAGAGGCACCCCGAC-TTTGAAAAGTAAATTG
1 CTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTG
*
15786230 CTCCTCTCCTCTAAACAGAGGCACCACAACTTTTG-AAAGTAAATTG
1 -----CTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTG
*
15786276 CTCCTCT-AACAGAGGCACCACGAC-TTTGGAAAGTAAATTG
1 CTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTG
* * * *
15786316 CTCCTCTAAATAGATGCACTACGACTTTTGGAAAGTAAATTG
1 CTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTG
15786358 CTCCT
1 CTCCT
15786363 TGGAAAGTAA
Statistics
Matches: 198, Mismatches: 8, Indels: 21
0.87 0.04 0.09
Matches are distributed among these distances:
39 4 0.02
40 34 0.17
41 58 0.29
42 27 0.14
43 37 0.19
46 34 0.17
47 4 0.02
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (42 bp):
CTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTG
Found at i:15786163 original size:60 final size:62
Alignment explanation
Indices: 15786043--15786165 Score: 214
Period size: 60 Copynumber: 2.0 Consensus size: 62
15786033 AAGTAAGTTG
*
15786043 CTCCTCTAAACAGAGGCACCACGACTTTTGAAAAAGTAAATTGCTCCTCTAAACATAGGCAC
1 CTCCTCTAAACAGAGGCACCACGACTTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCAC
*
15786105 CTCCTCTAAACAGAGGCACCACGAC-TTTG-AAAAGTAAGTTGCTCCTCTAAACAGAGGCAC
1 CTCCTCTAAACAGAGGCACCACGACTTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCAC
15786165 C
1 C
15786166 ACGACTTTTG
Statistics
Matches: 59, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
60 30 0.51
61 4 0.07
62 25 0.42
ACGTcount: A:0.34, C:0.28, G:0.16, T:0.21
Consensus pattern (62 bp):
CTCCTCTAAACAGAGGCACCACGACTTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCAC
Found at i:15786367 original size:19 final size:19
Alignment explanation
Indices: 15786343--15786379 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
15786333 ACTACGACTT
15786343 TTGGAAAGTAAATTGCTCC
1 TTGGAAAGTAAATTGCTCC
15786362 TTGGAAAGTAAATTGCTC
1 TTGGAAAGTAAATTGCTC
15786380 TTCTAAACAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.32
Consensus pattern (19 bp):
TTGGAAAGTAAATTGCTCC
Found at i:15786404 original size:61 final size:60
Alignment explanation
Indices: 15786301--15786422 Score: 190
Period size: 61 Copynumber: 2.0 Consensus size: 60
15786291 CACCACGACT
* * * *
15786301 TTGGAAAGTAAATTGCTCCTCTAAATAGATGCACTACGACTTTTGGAAAGTAAATTGCTCC
1 TTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACAAC-TTTGGAAAGTAAATTGCTCC
*
15786362 TTGGAAAGTAAATTGCTCTTCTAAACAGAGGCACCACAACTTTGGAAAGTAAATTGCTCC
1 TTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACAACTTTGGAAAGTAAATTGCTCC
15786422 T
1 T
15786423 CTAAACAGAG
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
60 21 0.38
61 35 0.62
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.30
Consensus pattern (60 bp):
TTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACAACTTTGGAAAGTAAATTGCTCC
Found at i:15786419 original size:41 final size:42
Alignment explanation
Indices: 15786362--15786466 Score: 176
Period size: 41 Copynumber: 2.5 Consensus size: 42
15786352 AAATTGCTCC
*
15786362 TTGGAAAGTAAATTGCTCTTCTAAACAGAGGCACCACAAC-T
1 TTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACAACTT
* *
15786403 TTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACTACGACTT
1 TTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACAACTT
15786445 TTGGAAAGTAAATTGCTCCTCT
1 TTGGAAAGTAAATTGCTCCTCT
15786467 GTTTATTGCT
Statistics
Matches: 60, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
41 37 0.62
42 23 0.38
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (42 bp):
TTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACAACTT
Found at i:15786439 original size:102 final size:102
Alignment explanation
Indices: 15786263--15786565 Score: 458
Period size: 102 Copynumber: 3.0 Consensus size: 102
15786253 CCACAACTTT
*
15786263 TGAAAGTAAATTGCTCCTCT-AACAGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTCTAAAT
1 TGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTCTAAAC
*
15786327 AGATGCACTACGACTTTTGGAAAGTAAATTGCTCCT-
66 AGAAGCACTACGACTTTTGGAAAGTAAATTGCTCCTC
* *
15786363 TGGAAAGTAAATTGCTCTTCTAAACAGAGGCACCACAACTTTGGAAAGTAAATTGCTCCTCTAAA
1 T-GAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTCTAAA
*
15786428 CAGAGGCACTACGACTTTTGGAAAGTAAATTGCTCCTC
65 CAGAAGCACTACGACTTTTGGAAAGTAAATTGCTCCTC
** *
15786466 T----GTTTATTGCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAAGTAAATTGCTCCTCTAA
1 TGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGAC-TTTG-GAAAGTAAATTGCTCCTCTAA
15786527 ACAGAAGCACTACGAC-TTTGGAAAGTAAATTGCTCCTC
64 ACAGAAGCACTACGACTTTTGGAAAGTAAATTGCTCCTC
15786565 T
1 T
15786566 AAACAGAGGC
Statistics
Matches: 188, Mismatches: 10, Indels: 11
0.90 0.05 0.05
Matches are distributed among these distances:
98 29 0.15
99 27 0.14
100 36 0.19
101 18 0.10
102 77 0.41
103 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (102 bp):
TGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTCTAAAC
AGAAGCACTACGACTTTTGGAAAGTAAATTGCTCCTC
Found at i:15786502 original size:57 final size:58
Alignment explanation
Indices: 15786414--15786524 Score: 197
Period size: 57 Copynumber: 1.9 Consensus size: 58
15786404 TGGAAAGTAA
* *
15786414 ATTGCTCCTCTAAACAGAGGCACTACGACTTTTG-GAAAGTAAATTGCTCCTCTGTTT
1 ATTGCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAAGTAAATTGCTCCTCTGTTT
15786471 ATTGCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAAGTAAATTGCTCCTCT
1 ATTGCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAAGTAAATTGCTCCTCT
15786525 AAACAGAAGC
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
57 33 0.65
58 18 0.35
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (58 bp):
ATTGCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAAGTAAATTGCTCCTCTGTTT
Found at i:15786564 original size:41 final size:41
Alignment explanation
Indices: 15786471--15786604 Score: 223
Period size: 41 Copynumber: 3.2 Consensus size: 41
15786461 TCCTCTGTTT
15786471 ATTGCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAAGTAA
1 ATTGCTCCTCTAAACAGAGGCACCACGAC-TTTG-AAAAGTAA
* * *
15786514 ATTGCTCCTCTAAACAGAAGCACTACGACTTTGGAAAGTAA
1 ATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAA
15786555 ATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAA
1 ATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAA
15786596 ATTGCTCCT
1 ATTGCTCCT
15786605 TGACAATCAT
Statistics
Matches: 85, Mismatches: 6, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
41 54 0.64
42 4 0.05
43 27 0.32
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.25
Consensus pattern (41 bp):
ATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAA
Found at i:15787904 original size:10 final size:10
Alignment explanation
Indices: 15787874--15787921 Score: 69
Period size: 10 Copynumber: 4.7 Consensus size: 10
15787864 CATTTTCTCA
*
15787874 TTTTTTCCTT
1 TTTTTTTCTT
*
15787884 CTTTCTTTCTT
1 -TTTTTTTCTT
15787895 TTTTTTTCTT
1 TTTTTTTCTT
15787905 TTTTTTTCTT
1 TTTTTTTCTT
15787915 TTTTTTT
1 TTTTTTT
15787922 TCATCATCTT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
10 26 0.76
11 8 0.24
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (10 bp):
TTTTTTTCTT
Found at i:15787933 original size:24 final size:23
Alignment explanation
Indices: 15787874--15787950 Score: 65
Period size: 24 Copynumber: 3.4 Consensus size: 23
15787864 CATTTTCTCA
*
15787874 TTTTTTCCT-TCTTTCTTTC-TTT
1 TTTTTTCATCTCTTT-TTTCTTTT
*
15787896 TTTTTTC-T-TTTTTTTTCTTTT
1 TTTTTTCATCTCTTTTTTCTTTT
15787917 TTTTTTCATCATCTTTTTT-TTTT
1 TTTTTTCATC-TCTTTTTTCTTTT
*
15787940 CATTTTTCATC
1 -TTTTTTCATC
15787951 CATTGTTGAT
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
20 4 0.09
21 15 0.32
22 8 0.17
23 4 0.09
24 16 0.34
ACGTcount: A:0.05, C:0.17, G:0.00, T:0.78
Consensus pattern (23 bp):
TTTTTTCATCTCTTTTTTCTTTT
Found at i:15788300 original size:9 final size:9
Alignment explanation
Indices: 15788273--15788314 Score: 52
Period size: 9 Copynumber: 4.7 Consensus size: 9
15788263 TATGTGTGGC
15788273 ATTTTTTTCT
1 ATTTTTTT-T
15788283 -TTTTCTTTT
1 ATTTT-TTTT
15788292 ATTTTTTTT
1 ATTTTTTTT
15788301 A-TTTTTTT
1 ATTTTTTTT
15788309 ATTTTT
1 ATTTTT
15788315 GAGACCTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
8 8 0.28
9 14 0.48
10 7 0.24
ACGTcount: A:0.10, C:0.05, G:0.00, T:0.86
Consensus pattern (9 bp):
ATTTTTTTT
Found at i:15788860 original size:22 final size:21
Alignment explanation
Indices: 15788809--15788860 Score: 50
Period size: 22 Copynumber: 2.4 Consensus size: 21
15788799 AAGTCATATT
* *
15788809 ACAAAAAAGAAATCTAACATT
1 ACAAAAAAGAAATCTAAAATG
**
15788830 ACTCGAAAAGAAATCTTAAAATG
1 AC-AAAAAAGAAATC-TAAAATG
15788853 ACAAAAAA
1 ACAAAAAA
15788861 AACCTTCAAC
Statistics
Matches: 23, Mismatches: 6, Indels: 3
0.72 0.19 0.09
Matches are distributed among these distances:
21 2 0.09
22 14 0.61
23 7 0.30
ACGTcount: A:0.62, C:0.13, G:0.08, T:0.17
Consensus pattern (21 bp):
ACAAAAAAGAAATCTAAAATG
Found at i:15791923 original size:57 final size:57
Alignment explanation
Indices: 15791859--15792185 Score: 489
Period size: 57 Copynumber: 5.7 Consensus size: 57
15791849 TTGTGCAGGA
*
15791859 AAAATTGATATTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTTTAAGG
* * * *
15791916 AAAATTGATACTTTCAACTTTTTCCCAAAATTATTTTTTGGAAACTTTGATTTTCAAAG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAA-TTT-ATTTTTAAGG
* *
15791975 AAAATTGATACTTTCAACTTTTCCTCAAAAATCCTTTTTT-GAAATTT-TATTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAAT-ATTTTTTGGAAATTTAT-TTTTAAGG
* *
15792032 AAAATCGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTTTAAGG
*
15792089 AAAATTGATACTTTCAACTTTTCTCCAAAAATATTTTTTTGGAAATTTATTTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTGGAAATTTA-TTTTTAAGG
15792148 -AAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTT
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTT
15792186 TCCAAAAATA
Statistics
Matches: 243, Mismatches: 19, Indels: 16
0.87 0.07 0.06
Matches are distributed among these distances:
56 7 0.03
57 128 0.53
58 52 0.21
59 50 0.21
60 6 0.02
ACGTcount: A:0.35, C:0.13, G:0.07, T:0.45
Consensus pattern (57 bp):
AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTTTAAGG
Found at i:15791992 original size:116 final size:114
Alignment explanation
Indices: 15791859--15792435 Score: 500
Period size: 116 Copynumber: 4.8 Consensus size: 114
15791849 TTGTGCAGGA
*
15791859 AAAATTGATATTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTTTAAGGAAAATTGA
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTTTAAGGAAAATTGA
* * *
15791924 TACTTTCAACTTTTTCCCAAAATTATTTTTTGGAAACTTTGATTTTCAAAG
66 TACTTTCAACTTTTCCCCAAAAATATTTTTT-GAAAATTT-ATTTTCAAAG
* * *
15791975 AAAATTGATACTTTCAACTTTTCCTCAAAAATCCTTTTTT-GAAATTT-TATTTTAAGGAAAATC
1 AAAATTGATACTTTCAACTTTTCCCCAAAAAT-ATTTTTTGGAAATTTAT-TTTTAAGGAAAATT
* *
15792038 GATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAATTTATTTTTAAGG
64 GATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAATTTATTTTCAAAG
*
15792089 AAAATTGATACTTTCAACTTTTCTCCAAAAATATTTTTTTGGAAATTTATTTTTTAAGG-AAATT
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTGGAAATTTA-TTTTTAAGGAAAATT
* * * *
15792153 GATACTTTCAACTTTTCCCCAAAAATATTTTTTTCCAAAAATATTTTTTTGGAAATTT
64 GATACTTTCAACTTTTCCCCAAAAATA-TTTTTT--GAAAAT-TTATTTT-CAAA--G
*** ** * ** * *
15792211 ATTTTTAAGGA-AAATTGATAC-TTTCAACTTTTCCCCAAAAATATTTTTTGGAAACTTTGATTT
1 AAAATT---GATACTTTCA-ACTTTTC--C----CCAAAAATATTTTTT--GGAAA-TTT-ATTT
* * * * * * *
15792274 TCAAGGAAAATTGATTCTTTCAACTTTTCCTCAAAAACCCT-TTTTTTGAAATTTTCTTTTTAAG
52 TTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAA---TATTTTTTGAAAATTTATTTTCAAA
15792338 G
114 G
* * ** *
15792339 AAAATTGATACTTTCAACTTTTCCTCAAAAACTTTTTTTTTTAAATTTATTTTTAAGAAAAATTG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAA-TATTTTTTGGAAATTTATTTTTAAGGAAAATTG
*
15792404 ATACTTTCAACTTTTCTCCAAAAATATTTTTT
65 ATACTTTCAACTTTTCCCCAAAAATATTTTTT
15792436 TTTATTTTTA
Statistics
Matches: 369, Mismatches: 57, Indels: 71
0.74 0.11 0.14
Matches are distributed among these distances:
114 45 0.12
115 52 0.14
116 95 0.26
117 43 0.12
118 8 0.02
119 9 0.02
120 6 0.02
121 5 0.01
122 3 0.01
124 9 0.02
125 8 0.02
126 8 0.02
128 3 0.01
129 5 0.01
130 8 0.02
131 11 0.03
132 15 0.04
133 29 0.08
134 6 0.02
136 1 0.00
ACGTcount: A:0.34, C:0.13, G:0.07, T:0.46
Consensus pattern (114 bp):
AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTTTAAGGAAAATTGA
TACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAATTTATTTTCAAAG
Found at i:15792190 original size:16 final size:16
Alignment explanation
Indices: 15792171--15792202 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
15792161 CAACTTTTCC
15792171 CCAAAAATATTTTTTT
1 CCAAAAATATTTTTTT
15792187 CCAAAAATATTTTTTT
1 CCAAAAATATTTTTTT
15792203 GGAAATTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (16 bp):
CCAAAAATATTTTTTT
Found at i:15792190 original size:74 final size:74
Alignment explanation
Indices: 15792107--15792259 Score: 281
Period size: 74 Copynumber: 2.1 Consensus size: 74
15792097 TACTTTCAAC
*
15792107 TTTTCTCCAAAAATATTTTTTTGGAAATTTATTTTTTAAGG-AAATTGATACTTTCAACTTTTCC
1 TTTTTTCCAAAAATATTTTTTTGGAAATTTA-TTTTTAAGGAAAATTGATACTTTCAACTTTTCC
15792171 CCAAAAATAT
65 CCAAAAATAT
15792181 TTTTTTCCAAAAATATTTTTTTGGAAATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCC
1 TTTTTTCCAAAAATATTTTTTTGGAAATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCC
15792246 CAAAAATAT
66 CAAAAATAT
15792255 TTTTT
1 TTTTT
15792260 GGAAACTTTG
Statistics
Matches: 77, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
73 9 0.12
74 68 0.88
ACGTcount: A:0.33, C:0.12, G:0.07, T:0.48
Consensus pattern (74 bp):
TTTTTTCCAAAAATATTTTTTTGGAAATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCC
CAAAAATAT
Found at i:15792249 original size:58 final size:59
Alignment explanation
Indices: 15792187--15792436 Score: 330
Period size: 59 Copynumber: 4.3 Consensus size: 59
15792177 ATATTTTTTT
15792187 CCAAAAATATTTTTTTGGAAA-TTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCC
1 CCAAAAATATTTTTTTGGAAACTTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCC
* *
15792245 CCAAAAATA-TTTTTTGGAAACTTTGATTTTCAAGGAAAATTGATTCTTTCAACTTTTCC
1 CCAAAAATATTTTTTTGGAAACTTT-ATTTTTAAGGAAAATTGATACTTTCAACTTTTCC
* ** * *
15792304 TCAAAAACCCTTTTTTT-GAAATTTTCTTTTTAAGGAAAATTGATACTTTCAACTTTTCC
1 CCAAAAA-TATTTTTTTGGAAACTTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCC
* ** * *
15792363 TCAAAAACT-TTTTTTTTTAAA-TTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCT
1 CCAAAAA-TATTTTTTTGGAAACTTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCC
15792421 CCAAAAATATTTTTTT
1 CCAAAAATATTTTTTT
15792437 TTATTTTTAT
Statistics
Matches: 171, Mismatches: 15, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
57 12 0.07
58 66 0.39
59 80 0.47
60 7 0.04
61 6 0.04
ACGTcount: A:0.33, C:0.14, G:0.07, T:0.46
Consensus pattern (59 bp):
CCAAAAATATTTTTTTGGAAACTTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCC
Found at i:15792318 original size:132 final size:131
Alignment explanation
Indices: 15792056--15792318 Score: 397
Period size: 132 Copynumber: 2.0 Consensus size: 131
15792046 CAACTTTTCC
*
15792056 CCAAAAATATTTTTTGAAAATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCTCCAAAAAT
1 CCAAAAATATTTTTTGAAAATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAAT
* **
15792121 ATTTTTTTGGAAATTTATTTTTTAAGGAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTT
66 ATTTTTTTGGAAATTTATTTTTCAAGGAAATTGATACTTTCAACTTTTCCCCAAAAATACCTTTT
15792186 T
131 T
*
15792187 CCAAAAATATTTTTTTGGAAATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAA
1 CCAAAAATA-TTTTTTGAAAATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAA
* * *
15792252 TA-TTTTTTGGAAACTTTGA-TTTTCAAGGAAAATTGATTCTTTCAACTTTTCCTCAAAAA-CCC
65 TATTTTTTTGGAAA-TTT-ATTTTTCAAGG-AAATTGATACTTTCAACTTTTCCCCAAAAATACC
15792314 TTTTT
127 TTTTT
15792319 TTGAAATTTT
Statistics
Matches: 120, Mismatches: 8, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
131 20 0.17
132 71 0.59
133 29 0.24
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (131 bp):
CCAAAAATATTTTTTGAAAATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAAT
ATTTTTTTGGAAATTTATTTTTCAAGGAAATTGATACTTTCAACTTTTCCCCAAAAATACCTTTT
T
Found at i:15792438 original size:118 final size:117
Alignment explanation
Indices: 15792181--15792437 Score: 349
Period size: 117 Copynumber: 2.2 Consensus size: 117
15792171 CCAAAAATAT
* *
15792181 TTTTTTCCAAAAATATTTTTTTGGAAATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCC
1 TTTTCTCCAAAAATATTTTTTTTGAAATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCC
* *
15792246 CAAAAATATTTTTTGGAAACTTTGATTTTCAAGGAAAATTGATTCTTTCAAC
66 CAAAAATATTTTTTGGAAACTTTGATTTTCAAGAAAAATTGATACTTTCAAC
*** *
15792298 TTTTC-CTCAAAAACCCTTTTTTTGAAATTTTCTTTTTAAGGAAAATTGATACTTTCAACTTTTC
1 TTTTCTC-CAAAAATATTTTTTTTGAAA-TTTATTTTTAAGGAAAATTGATACTTTCAACTTTTC
* * ** *
15792362 CTCAAAAACTTTTTTTTTTAAA-TTT-ATTTTTAAGAAAAATTGATACTTTCAAC
64 CCCAAAAA-TATTTTTTGGAAACTTTGATTTTCAAGAAAAATTGATACTTTCAAC
15792415 TTTTCTCCAAAAATATTTTTTTT
1 TTTTCTCCAAAAATATTTTTTTT
15792438 TATTTTTATT
Statistics
Matches: 120, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
116 1 0.01
117 63 0.52
118 46 0.38
119 10 0.08
ACGTcount: A:0.32, C:0.13, G:0.07, T:0.48
Consensus pattern (117 bp):
TTTTCTCCAAAAATATTTTTTTTGAAATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCC
CAAAAATATTTTTTGGAAACTTTGATTTTCAAGAAAAATTGATACTTTCAAC
Found at i:15792476 original size:13 final size:13
Alignment explanation
Indices: 15792453--15792538 Score: 60
Period size: 12 Copynumber: 6.9 Consensus size: 13
15792443 TTATTTAAAG
*
15792453 AAAATAGAATAAT
1 AAAATAAAATAAT
*
15792466 AAAACAAAAT-A-
1 AAAATAAAATAAT
15792477 AAAATAAAA-AAT
1 AAAATAAAATAAT
*
15792489 AAAATAAAATAAAG
1 AAAATAAAAT-AAT
*
15792503 AAAAGTAAAA-CA-
1 AAAA-TAAAATAAT
15792515 AAAAT-AAA-AAT
1 AAAATAAAATAAT
15792526 AAAATAAAGATAA
1 AAAATAAA-ATAA
15792539 AAAGAATATT
Statistics
Matches: 58, Mismatches: 6, Indels: 17
0.72 0.07 0.21
Matches are distributed among these distances:
10 4 0.07
11 15 0.26
12 16 0.28
13 10 0.17
14 8 0.14
15 5 0.09
ACGTcount: A:0.78, C:0.02, G:0.05, T:0.15
Consensus pattern (13 bp):
AAAATAAAATAAT
Found at i:15792482 original size:6 final size:6
Alignment explanation
Indices: 15792471--15792541 Score: 58
Period size: 6 Copynumber: 11.7 Consensus size: 6
15792461 ATAATAAAAC
* *
15792471 AAAATA AAAATA AAAA-A TAAAAT- AAAATA AAGAAAA GTAAAACA AAAATA
1 AAAATA AAAATA AAAATA -AAAATA AAAATA AA-AATA --AAAATA AAAATA
*
15792521 AAAAT- AAAATA AAGATA AAAA
1 AAAATA AAAATA AAAATA AAAA
15792542 GAATATTAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
5 11 0.21
6 34 0.64
7 3 0.06
8 3 0.06
9 2 0.04
ACGTcount: A:0.80, C:0.01, G:0.04, T:0.14
Consensus pattern (6 bp):
AAAATA
Found at i:15792485 original size:5 final size:5
Alignment explanation
Indices: 15792463--15792540 Score: 63
Period size: 5 Copynumber: 15.4 Consensus size: 5
15792453 AAAATAGAAT
* * *
15792463 AATAA AACAA AATAA AA-AT AA-AA AATAA AATAA AATAA AGA-AA AGTAA
1 AATAA AATAA AATAA AATAA AATAA AATAA AATAA AATAA A-ATAA AATAA
*
15792511 AACAAA AATAAA AATAA AATAA AGATAA AA
1 AA-TAA AAT-AA AATAA AATAA A-ATAA AA
15792541 AGAATATTAA
Statistics
Matches: 59, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
4 6 0.10
5 38 0.64
6 15 0.25
ACGTcount: A:0.79, C:0.03, G:0.04, T:0.14
Consensus pattern (5 bp):
AATAA
Found at i:15792571 original size:4 final size:4
Alignment explanation
Indices: 15792564--15792688 Score: 85
Period size: 4 Copynumber: 30.2 Consensus size: 4
15792554 AACCTAATCT
* *
15792564 AATA AATA AATA AATA AATA AA-A AACA AATA AACA AATA AATA AATA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA
* * * * *
15792611 AATTCA AAAA AATT AATA GATA ATTA AAAA AAT- AATA AGATA AATCA
1 AA-T-A AATA AATA AATA AATA AATA AATA AATA AATA A-ATA AAT-A
* *
15792658 AA-A TAATA TTATA AGATA AATA AAAA AATA A
1 AATA -AATA -AATA A-ATA AATA AATA AATA A
15792689 TAATAACAGA
Statistics
Matches: 95, Mismatches: 17, Indels: 18
0.73 0.13 0.14
Matches are distributed among these distances:
3 7 0.07
4 68 0.72
5 17 0.18
6 3 0.03
ACGTcount: A:0.71, C:0.03, G:0.02, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:15792675 original size:23 final size:22
Alignment explanation
Indices: 15792590--15792687 Score: 82
Period size: 21 Copynumber: 4.6 Consensus size: 22
15792580 AATAAAAAAC
* *
15792590 AAATAAACAAATA-AATAA-AT
1 AAATAAAAAAATATTATAAGAT
*
15792610 AAATTCAAAAAA-ATTA-ATAGAT
1 AAA-TAAAAAAATATTATA-AGAT
*
15792632 AATTAAAAAAATA--ATAAGAT
1 AAATAAAAAAATATTATAAGAT
*
15792652 AAATCAAAATAATATTATAAGAT
1 AAAT-AAAAAAATATTATAAGAT
15792675 AAATAAAAAAATA
1 AAATAAAAAAATA
15792688 ATAATAACAG
Statistics
Matches: 61, Mismatches: 8, Indels: 16
0.72 0.09 0.19
Matches are distributed among these distances:
20 13 0.21
21 24 0.39
22 13 0.21
23 11 0.18
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.24
Consensus pattern (22 bp):
AAATAAAAAAATATTATAAGAT
Found at i:15792687 original size:43 final size:41
Alignment explanation
Indices: 15792590--15792691 Score: 127
Period size: 43 Copynumber: 2.4 Consensus size: 41
15792580 AATAAAAAAC
*
15792590 AAATAAACAAATAAATAAATAAATTCAAAAAAATTAATAGAT
1 AAATAAAAAAAT-AATAAATAAATTCAAAAAAATTAATAGAT
*
15792632 AATTAAAAAAATAATAAGATAAA-TCAAAATAATATT-ATAAGAT
1 AAATAAAAAAATAATAA-ATAAATTCAAAA-AA-ATTAAT-AGAT
15792675 AAATAAAAAAATAATAA
1 AAATAAAAAAATAATAA
15792692 TAACAGATAG
Statistics
Matches: 53, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
41 11 0.21
42 19 0.36
43 23 0.43
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.25
Consensus pattern (41 bp):
AAATAAAAAAATAATAAATAAATTCAAAAAAATTAATAGAT
Found at i:15792694 original size:23 final size:22
Alignment explanation
Indices: 15792563--15792728 Score: 104
Period size: 22 Copynumber: 7.8 Consensus size: 22
15792553 AAACCTAATC
*
15792563 TAATAA-ATAAATAAATAAATA
1 TAATAAGATAAATAAAAAAATA
* *
15792584 -AA-AA-ACAAATAAACAAATA
1 TAATAAGATAAATAAAAAAATA
15792603 -AATAA-ATAAATTCAAAAAAAT-
1 TAATAAGATAAA-T-AAAAAAATA
*
15792624 TAAT-AGAT-AATTAAAAAA-A
1 TAATAAGATAAATAAAAAAATA
*
15792643 TAATAAGATAAATCAAAATAATA
1 TAATAAGATAAAT-AAAAAAATA
*
15792666 TTATAAGATAAATAAAAAAATAA
1 TAATAAGATAAATAAAAAAAT-A
* * *
15792689 TAATAACAGATAGAT--AGATATA
1 TAAT-A-AGATAAATAAAAAAATA
*
15792711 TAATTAGATAAATAAAAA
1 TAATAAGATAAATAAAAA
15792729 TACATACAAA
Statistics
Matches: 114, Mismatches: 16, Indels: 29
0.72 0.10 0.18
Matches are distributed among these distances:
19 27 0.24
20 20 0.18
21 7 0.06
22 31 0.27
23 21 0.18
24 1 0.01
25 7 0.06
ACGTcount: A:0.68, C:0.03, G:0.04, T:0.25
Consensus pattern (22 bp):
TAATAAGATAAATAAAAAAATA
Found at i:15792849 original size:25 final size:25
Alignment explanation
Indices: 15792791--15792871 Score: 85
Period size: 25 Copynumber: 3.2 Consensus size: 25
15792781 TATATATGTT
*
15792791 AATAAATA-ATAATA-ATAAATAAA
1 AATAAATACATAAAATATAAATAAA
** *
15792814 TAATAAATACATAGGATATAAAGAAA
1 -AATAAATACATAAAATATAAATAAA
*
15792840 AATATATACATAAAATATAAAATAAA
1 AATAAATACATAAAATAT-AAATAAA
15792866 AATAAA
1 AATAAA
15792872 ATAAAAATAA
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
24 8 0.17
25 19 0.41
26 19 0.41
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.25
Consensus pattern (25 bp):
AATAAATACATAAAATATAAATAAA
Found at i:15792867 original size:13 final size:12
Alignment explanation
Indices: 15792829--15792900 Score: 62
Period size: 11 Copynumber: 6.2 Consensus size: 12
15792819 AATACATAGG
15792829 ATATAAAGA-AAA
1 ATATAAA-ATAAA
*
15792841 ATATATACATAAA
1 ATATA-AAATAAA
15792854 ATATAAAATAAA
1 ATATAAAATAAA
15792866 A-ATAAAATAAA
1 ATATAAAATAAA
*
15792877 A-ATAACA-AAA
1 ATATAAAATAAA
**
15792887 ATGCAAAATAAA
1 ATATAAAATAAA
15792899 AT
1 AT
15792901 TGGACTTACC
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
10 4 0.08
11 19 0.38
12 18 0.36
13 9 0.18
ACGTcount: A:0.72, C:0.04, G:0.03, T:0.21
Consensus pattern (12 bp):
ATATAAAATAAA
Found at i:15796207 original size:14 final size:13
Alignment explanation
Indices: 15796184--15796245 Score: 58
Period size: 14 Copynumber: 4.8 Consensus size: 13
15796174 CCATTAAACA
15796184 AAAATAATAAATT
1 AAAATAATAAATT
15796197 AAAATATATAAATT
1 AAAATA-ATAAATT
* *
15796211 ACAA-AATTAA--
1 AAAATAATAAATT
15796221 AAAATAATAATAATT
1 AAAATAAT-A-AATT
15796236 AAAATAATAA
1 AAAATAATAA
15796246 TAAATAATTA
Statistics
Matches: 39, Mismatches: 4, Indels: 12
0.71 0.07 0.22
Matches are distributed among these distances:
10 3 0.08
11 3 0.08
12 4 0.10
13 10 0.26
14 11 0.28
15 8 0.21
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (13 bp):
AAAATAATAAATT
Found at i:15796336 original size:30 final size:31
Alignment explanation
Indices: 15796300--15796358 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
15796290 AATAAATAAT
* *
15796300 AAATAAATA-AAAATTTAAAGGCCCAAAAAC
1 AAATAAAAATAAAATTTAAAAGCCCAAAAAC
*
15796330 AAATAAAAATAAAATTTAAAAGCCTAAAA
1 AAATAAAAATAAAATTTAAAAGCCCAAAA
15796359 CATGGCCAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 8 0.32
31 17 0.68
ACGTcount: A:0.66, C:0.10, G:0.05, T:0.19
Consensus pattern (31 bp):
AAATAAAAATAAAATTTAAAAGCCCAAAAAC
Found at i:15798952 original size:36 final size:36
Alignment explanation
Indices: 15798902--15798972 Score: 99
Period size: 36 Copynumber: 2.0 Consensus size: 36
15798892 TATAGAAAGC
* *
15798902 AATGGTGAATATGATACTATTAATTTGGTAAAAAAT
1 AATGGTGAATATGATACTACTAATTTGATAAAAAAT
*
15798938 AATGGTGGAA-ATGATACTGCTAATTTGATAAAAAA
1 AATGGT-GAATATGATACTACTAATTTGATAAAAAA
15798973 ACATTTGTGC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
36 28 0.90
37 3 0.10
ACGTcount: A:0.45, C:0.04, G:0.18, T:0.32
Consensus pattern (36 bp):
AATGGTGAATATGATACTACTAATTTGATAAAAAAT
Found at i:15803451 original size:17 final size:16
Alignment explanation
Indices: 15803428--15803470 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
15803418 TTGACTATCG
*
15803428 TGGAAGAAAAAGAAGA
1 TGGAAGAAAAAGAAAA
15803444 TAGGAAGAGAAAAGAAAA
1 T-GGAAGA-AAAAGAAAA
15803462 TGGAAGAAA
1 TGGAAGAAA
15803471 TGAATAGTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 3 0.12
17 12 0.50
18 9 0.38
ACGTcount: A:0.63, C:0.00, G:0.30, T:0.07
Consensus pattern (16 bp):
TGGAAGAAAAAGAAAA
Found at i:15804002 original size:20 final size:20
Alignment explanation
Indices: 15803964--15804003 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
15803954 CTAGATGTTG
*
15803964 GAGAATTAAATTTTATTAAA
1 GAGAATTAAATTGTATTAAA
15803984 GAGAATTAGAATTGT-TTAAA
1 GAGAATTA-AATTGTATTAAA
15804004 AAAATTGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.47, C:0.00, G:0.15, T:0.38
Consensus pattern (20 bp):
GAGAATTAAATTGTATTAAA
Found at i:15806491 original size:22 final size:20
Alignment explanation
Indices: 15806453--15806492 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
15806443 CTCAATAAAA
*
15806453 AATTTGATTAAATTTAATCT
1 AATTTGATTAAAATTAATCT
15806473 AATTTGATTTTAAAATTAAT
1 AATTTGA--TTAAAATTAAT
15806493 AAATTAAACC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
22 10 0.59
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (20 bp):
AATTTGATTAAAATTAATCT
Found at i:15806636 original size:16 final size:16
Alignment explanation
Indices: 15806617--15806655 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
15806607 ACCTAAACCA
15806617 AAAATGACTTCAAAAC-
1 AAAATGAC-TCAAAACT
*
15806633 AAAATAACTCAAAACT
1 AAAATGACTCAAAACT
15806649 AAAATGA
1 AAAATGA
15806656 TACAACCCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.62, C:0.15, G:0.05, T:0.18
Consensus pattern (16 bp):
AAAATGACTCAAAACT
Found at i:15808807 original size:789 final size:783
Alignment explanation
Indices: 15806724--15808809 Score: 2196
Period size: 787 Copynumber: 2.6 Consensus size: 783
15806714 ACTTACCAAT
* * * *
15806724 TTGTTAGGCAAAAAAACCCTAATCCAATCAAGCAAGTGGAAGCAAAATCAAATGATTAATCAATC
1 TTGTTAGGCAAAAAAGCCC-AATCCAATTAAACTAGTGGAAGCAAAATCAAATGATTAATCAATC
* * * * ** * *
15806789 ACATAAGA-GATAATAATTTAATATGATTTAGCCCAATTGACTTATGTTTACGAATGAGAAAAAA
65 ACACAAGATG-TAATAATTTAATATG-TTCAGCCCAACTGACCTACATTCACGGATGAGAAAAAA
* * *
15806853 GA-TCTACTAGTTATAAAAAATTACAAACATACAATCAAATCAACCATTTACAATTAATATCCAT
128 GATTCT--TTGTTATAAAGAATTACAAACATACAATCAAATCAACCACTTACAATTAATATCCAT
* * * *
15806917 AGACCTTCTCAATCTCCTCTAATCATATAAAATATTCTT-AATCTAAACAAACGCATACCCATGT
191 AGACCTTCTCAATCTCCTCTAATCATATAAAATATT-TTCAACCCAAACAAACACATACTCATGT
* * * * * * *
15806981 GTACCTATGCACTATATTTATGTGGATCCTTTTAGTCTTATCTAATCCACTCATAAACATTCAAA
255 ATACCCATACACTATATCTATGTGGAT-TTTTTAGTCTT-TTTAGTCCACTCATAAACATTCAAA
* * *
15807046 CATATACACCCATAAGATGTAAATCTCTAGTAGTCATAT-GAGCTGTCTATTCCATAAAACCCTA
318 CATATACACCCATAAGATGTAAATCTCTAGTAGTCTTATAG-GGTGTATATTCCATAAAACCCTA
* * * * *
15807110 TAACTCTTTTACATCTTTTTCTCATGCCTAACCCTATAAAAAACTTCACATATTTATAAGCATAC
382 TAACTCTCTTACATTTTTTTCTCATGCCTAACTCTAT-AAAGACTTCACCTATTTATAAGCATAC
** *
15807175 AAA-TTTTCCTATCAAGAATCT-TTTTTTCTTAGAATTCTTCTCTTACAAGTCTTCTTGTCTATC
446 AAACTTTT--TATCAAGAATCTCTTTCCTCTTAGAATTCTTCTCTTACAAGTCTTCTTGTCCATC
*
15807238 AAATAATATCTAATAAATCCTAAACAAATCTGTTATGGAATTTGAGTCACTATCCCTAACAATAT
509 AAATAATATCTAATAAATCCTAAACAAATCTATTATGGAATTTGAGTCACTATCCCTAACAATAT
* * * * * * *
15807303 CCACCTTAACTCAAATTTCATTAATCATTAATCTTCATGCTAGACATGCTTGGCTCAACCTGAAT
574 CCACCTTAACTCAAATTCCATCAATCATCAATCTTAATGCTAGAAATGCTTAGCTCAACATGAAT
* * * * ** *
15807368 GGAAGTCTCACAATCATCTTTTCTTATGTGTCTTCACATTTCACGTAAATTGATTTATCAAAACA
639 GAAAGTCTCACAACCATCTTTTCTTATGTATCTTCACACTTCACACAAATTGATCTATCAAAACA
* **
15807433 TGAACTCGAACTCATCAATTAAATCGAGCTTCTCTGGACTTGCCTTTTCCCATATCAAGAACTTT
704 TGAACTCGAACTCATCAATTAAATCGAGCTTCTCTAGACTTGCCTTTTCCCATATCAAGAACCAT
* * *
15807498 TAGCTCTAATATCAT
769 TAGCTATAATACCAC
* * ** * *
15807513 TTGTTAGGCAAAAAAGCCCCAATCCAA-TCAAGTCAGCAGAAGTAAAATCAAATGAATAATCAAT
1 TTGTTAGGCAAAAAAG-CCCAATCCAATTAAACT-AGTGGAAGCAAAATCAAATGATTAATCAAT
* ** * * * * ** *
15807577 CACCCAAGATACAATAATTT--TATGGTTCAACCTAACCGACCTACATCCATAGATGAAAAAAAA
64 CACACAAGATGTAATAATTTAATAT-GTTCAGCCCAACTGACCTACATTCACGGATGAGAAAAAA
* * * * * * * * *
15807640 GATCCACTAGTTATAGAGAATTATAAATATACAATCAGATTAACCACTCACAATTAATATCCATA
128 GATTC-TTTGTTATAAAGAATTACAAACATACAATCAAATCAACCACTTACAATTAATATCCATA
* * * * * * * * *
15807705 GACCTTTTCAATCTCCTCCAGTCTTATAAAATATTCTCAACCCAAACAAACATATGCTTATGTTT
192 GACCTTCTCAATCTCCTCTAATCATATAAAATATTTTCAACCCAAACAAACACATACTCATGTAT
* * * *
15807770 ACCCA-AGCACTATATCTATGTGGATTCTCTTAGTCTTTTTTAGTCCGCTCACAAACATTCAACC
257 ACCCATA-CACTATATCTATGTGGATT-TTTTAGTC-TTTTTAGTCCACTCATAAACATTCAAAC
* * * * * *
15807834 ATATACACCCATAACATGTAAATCTCCAATAGTCTTATAGGGTCTATA-TCCTATAAAACCTTAC
319 ATATACACCCATAAGATGTAAATCTCTAGTAGTCTTATAGGGTGTATATTCC-ATAAAACCCTAT
** **
15807898 AACTCTCTTACATTTTTTTCTCATATCTAA-TCCTATAAAGACTTTTCCTATTTATAAGCATACA
383 AACTCTCTTACATTTTTTTCTCATGCCTAACT-CTATAAAGACTTCACCTATTTATAAGCATACA
** * * * * *
15807962 AACTTACATATTAAGAACCCCTTTCGTCTTAGAATTCTTCTCTTATAAGTCTTCTTGTCCATCAA
447 AACTT-TTTATCAAGAATCTCTTTCCTCTTAGAATTCTTCTCTTACAAGTCTTCTTGTCCATCAA
* * * * ** *
15808027 GTAATATCTAACT-AAT-CTCAAACAAATCTATTATGGGATTTGAGTCACTCT-TCTCAGTAATT
511 ATAATATCTAA-TAAATCCT-AAACAAATCTATTATGGAATTTGAGTCACTATCCCT-AACAATA
* * *
15808089 TTCACCTTGACTCAAATTCCATCAAT-ATCAATCTTAATGCTAGAAATGCTTAGCTCCACATGCA
573 TCCACCTTAACTCAAATTCCATCAATCATCAATCTTAATGCTAGAAATGCTTAGCTCAACATG-A
* *
15808153 ATGAAAGTCTCACAACCATCTTTTCTTGTGTATTTTCACACTTCACACAAATTGATCTATCAAAA
637 ATGAAAGTCTCACAACCATCTTTTCTTATGTATCTTCACACTTCACACAAATTGATCTATCAAAA
* ** ** * * *
15808218 CATGAACTTGAACTTTTCTTTTGAATCGAGC-TCTTCTAGACTTGTCTTTTCCCATATCTCA-AA
702 CATGAACTCGAACTCATCAATTAAATCGAGCTTC-TCTAGACTTGCCTTTTCCCATATC-AAGAA
* *
15808281 CCATTAGTTATGATACCAC
765 CCATTAGCTATAATACCAC
** *
15808300 TTGTTAGGCAAAAAAGCTCCAATCCAATTAAACTAGTGGAAGCAAAATCAAGCGATTAATCAACC
1 TTGTTAGGCAAAAAAGC-CCAATCCAATTAAACTAGTGGAAGCAAAATCAAATGATTAATCAATC
*
15808365 ACACAAAATGTAATAATTTAATATAGTTCAGCCCAACTGACCTACATTCACGGATGAGAAAAAAG
65 ACACAAGATGTAATAATTTAATAT-GTTCAGCCCAACTGACCTACATTCACGGATGAGAAAAAAG
** * *
15808430 ATTCTTGTGTTGGAAAGAATTACAAACATACAATTAAATCAACCACTTACAATTAATA-CCTGTA
129 ATTCTT-TGTTATAAAGAATTACAAACATACAATCAAATCAACCACTTACAATTAATATCC-ATA
* * * ** *
15808494 GACCCTCTCGATCTCCTCTAATCCTATGGAATATTTTCTACCCAAGA-AAACACATACTCATGTA
192 GACCTTCTCAATCTCCTCTAATCATATAAAATATTTTCAACCCAA-ACAAACACATACTCATGTA
* * * * *
15808558 CACCCATACACCATATCTATGTGAACTTTTTTAGTCTCTTTTAGTCTACTCATAAATATTCAAAC
256 TACCCATACACTATATCTATGTGGA-TTTTTTAGTCT-TTTTAGTCCACTCATAAACATTCAAAC
*** * *
15808623 ATATATGTCCATAAGATGTAAATCTATAGTAGTCTTATAGGGTGTTTATTCCATAAAACCCTATA
319 ATATACACCCATAAGATGTAAATCTCTAGTAGTCTTATAGGGTGTATATTCCATAAAACCCTATA
* * * * *
15808688 ACTGTCTTGCATTTTTTTCTTATGCCTAACTCTATAGAGACTTCACCTATTTATAAACATACAAA
384 ACTCTCTTACATTTTTTTCTCATGCCTAACTCTATAAAGACTTCACCTATTTATAAGCATACAAA
* * * *
15808753 CTTGTTTATCAAAAATGTCTTTCCTCTTAAAATTCTTCTCTTACAAATCTTCTTGTC
449 CTT-TTTATCAAGAATCTCTTTCCTCTTAGAATTCTTCTCTTACAAGTCTTCTTGTC
15808810 TTTATATCTA
Statistics
Matches: 1043, Mismatches: 220, Indels: 68
0.78 0.17 0.05
Matches are distributed among these distances:
786 76 0.07
787 549 0.53
788 16 0.02
789 391 0.37
790 11 0.01
ACGTcount: A:0.35, C:0.22, G:0.09, T:0.34
Consensus pattern (783 bp):
TTGTTAGGCAAAAAAGCCCAATCCAATTAAACTAGTGGAAGCAAAATCAAATGATTAATCAATCA
CACAAGATGTAATAATTTAATATGTTCAGCCCAACTGACCTACATTCACGGATGAGAAAAAAGAT
TCTTTGTTATAAAGAATTACAAACATACAATCAAATCAACCACTTACAATTAATATCCATAGACC
TTCTCAATCTCCTCTAATCATATAAAATATTTTCAACCCAAACAAACACATACTCATGTATACCC
ATACACTATATCTATGTGGATTTTTTAGTCTTTTTAGTCCACTCATAAACATTCAAACATATACA
CCCATAAGATGTAAATCTCTAGTAGTCTTATAGGGTGTATATTCCATAAAACCCTATAACTCTCT
TACATTTTTTTCTCATGCCTAACTCTATAAAGACTTCACCTATTTATAAGCATACAAACTTTTTA
TCAAGAATCTCTTTCCTCTTAGAATTCTTCTCTTACAAGTCTTCTTGTCCATCAAATAATATCTA
ATAAATCCTAAACAAATCTATTATGGAATTTGAGTCACTATCCCTAACAATATCCACCTTAACTC
AAATTCCATCAATCATCAATCTTAATGCTAGAAATGCTTAGCTCAACATGAATGAAAGTCTCACA
ACCATCTTTTCTTATGTATCTTCACACTTCACACAAATTGATCTATCAAAACATGAACTCGAACT
CATCAATTAAATCGAGCTTCTCTAGACTTGCCTTTTCCCATATCAAGAACCATTAGCTATAATAC
CAC
Found at i:15811142 original size:22 final size:21
Alignment explanation
Indices: 15811095--15811151 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
15811085 AAAAATTTGT
15811095 AAAATATTCAAAAAAAAATCC
1 AAAATATTCAAAAAAAAATCC
*
15811116 AAAATATTCAAATAAGAAATCC
1 AAAATATTCAAA-AAAAAATCC
* *
15811138 GAAAT-TTTAAAAAA
1 AAAATATTCAAAAAA
15811152 TAGAAAATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
20 2 0.06
21 17 0.55
22 12 0.39
ACGTcount: A:0.63, C:0.11, G:0.04, T:0.23
Consensus pattern (21 bp):
AAAATATTCAAAAAAAAATCC
Found at i:15811688 original size:17 final size:16
Alignment explanation
Indices: 15811668--15811706 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
15811658 AAATTTTTAA
15811668 ATTTTTAGATTTTTTCT
1 ATTTTTAGATTTTTT-T
**
15811685 ATTTTTCTATTTTTTT
1 ATTTTTAGATTTTTTT
15811701 ATTTTT
1 ATTTTT
15811707 TTAAAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.15, C:0.05, G:0.03, T:0.77
Consensus pattern (16 bp):
ATTTTTAGATTTTTTT
Found at i:15811707 original size:8 final size:8
Alignment explanation
Indices: 15811676--15811709 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
15811666 AAATTTTTAG
15811676 ATTTTTTCT
1 ATTTTTT-T
*
15811685 ATTTTTCT
1 ATTTTTTT
15811693 ATTTTTTT
1 ATTTTTTT
15811701 ATTTTTTT
1 ATTTTTTT
15811709 A
1 A
15811710 AAAAAATTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
8 17 0.74
9 6 0.26
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (8 bp):
ATTTTTTT
Found at i:15813978 original size:15 final size:16
Alignment explanation
Indices: 15813960--15813990 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
15813950 ATATGAGTAA
15813960 TAATTAT-ATATAATT
1 TAATTATAATATAATT
15813975 TAATTATAATATAATT
1 TAATTATAATATAATT
15813991 AACAAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TAATTATAATATAATT
Found at i:15815077 original size:16 final size:17
Alignment explanation
Indices: 15815053--15815085 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
15815043 TATCAACATT
15815053 AAAAG-AAAATTTTTAA
1 AAAAGAAAAATTTTTAA
*
15815069 AAAATAAAAATTTTTAA
1 AAAAGAAAAATTTTTAA
15815086 TTTTTTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (17 bp):
AAAAGAAAAATTTTTAA
Found at i:15815227 original size:30 final size:29
Alignment explanation
Indices: 15815156--15815236 Score: 73
Period size: 29 Copynumber: 2.8 Consensus size: 29
15815146 AAAAATTGTG
*
15815156 AAAA-TTTA-AAAAATTC-AAAAAATCTC
1 AAAATTTTATAAAAATCCAAAAAAATCTC
15815182 AAAATTTTAATAAAAATCCCAAAAAAAT-TC
1 AAAATTTT-ATAAAAAT-CCAAAAAAATCTC
*
15815212 AAAATATTT-TGAAAAATTCAAAAAA
1 AAAAT-TTTAT-AAAAATCCAAAAAA
15815237 TAAAAATTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
26 4 0.09
27 3 0.07
28 1 0.02
29 14 0.30
30 14 0.30
31 10 0.22
ACGTcount: A:0.62, C:0.10, G:0.01, T:0.27
Consensus pattern (29 bp):
AAAATTTTATAAAAATCCAAAAAAATCTC
Found at i:15815304 original size:23 final size:24
Alignment explanation
Indices: 15815277--15815324 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 24
15815267 AAATTCAAAG
15815277 AAATTG-AAAA-AAGAAAACTTAAA
1 AAATTGAAAAATAAGAAAAC-TAAA
15815300 AAATTGAAAAATAAGAAAACTAAA
1 AAATTGAAAAATAAGAAAACTAAA
15815324 A
1 A
15815325 TTTTTTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 6 0.26
24 9 0.39
25 8 0.35
ACGTcount: A:0.71, C:0.04, G:0.08, T:0.17
Consensus pattern (24 bp):
AAATTGAAAAATAAGAAAACTAAA
Found at i:15815456 original size:27 final size:25
Alignment explanation
Indices: 15815393--15815457 Score: 60
Period size: 27 Copynumber: 2.5 Consensus size: 25
15815383 AAAATTTTAT
* **
15815393 TTTTATGAATCTTACAATTTTAATT
1 TTTTATGAATTTTACAATTTTAAGA
*
15815418 TTTTAT-ATATTTTATGAATTTTTAAGA
1 TTTTATGA-ATTTTA-CAA-TTTTAAGA
15815445 TTTTATGAATTTT
1 TTTTATGAATTTT
15815458 TTTGATTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
24 1 0.03
25 11 0.34
26 2 0.06
27 17 0.53
28 1 0.03
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.60
Consensus pattern (25 bp):
TTTTATGAATTTTACAATTTTAAGA
Found at i:15815468 original size:20 final size:19
Alignment explanation
Indices: 15815414--15815493 Score: 63
Period size: 20 Copynumber: 4.1 Consensus size: 19
15815404 TTACAATTTT
*
15815414 AATTTTTTATATATTTTATG
1 AATTTTTT-TATTTTTTATG
* **
15815434 AA-TTTTTAAGATTTTATG
1 AATTTTTTTATTTTTTATG
*
15815452 AATTTTTTTGATTTTTTATTA
1 AATTTTTTT-ATTTTTTA-TG
* *
15815473 AAATTTTTTATTTTTCATG
1 AATTTTTTTATTTTTTATG
15815492 AA
1 AA
15815494 CTTTCATCAT
Statistics
Matches: 48, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
18 11 0.23
19 13 0.27
20 15 0.31
21 9 0.19
ACGTcount: A:0.30, C:0.01, G:0.06, T:0.62
Consensus pattern (19 bp):
AATTTTTTTATTTTTTATG
Found at i:15825240 original size:144 final size:144
Alignment explanation
Indices: 15825056--15825345 Score: 526
Period size: 144 Copynumber: 2.0 Consensus size: 144
15825046 AAATGAATAA
15825056 ATGAATAACTTAATAAAATATAAACAAGGAAAAAGAAAGAAAAAAATCTCAAATTTATTAGGTTA
1 ATGAATAACTTAATAAAATATAAACAAGGAAAAAGAAAGAAAAAAATCTCAAATTTATTAGGTTA
* * *
15825121 GGCTTGGATAACAAGAAATCATTTACTGGCTTGACTTTTGATTTCCCCAGTGGATTCACTAAACT
66 GGCTTAGATAACAAGAAATCATTTACTGGCTTGACTCTTGATTTCCCCAGTGGAGTCACTAAACT
15825186 ATTATAACATATAG
131 ATTATAACATATAG
*
15825200 ATGAATAACTTAATAAAATATAATCAAGGAAAAAGAAAGAAAAAAATCTCAAATTTATTAGGTTA
1 ATGAATAACTTAATAAAATATAAACAAGGAAAAAGAAAGAAAAAAATCTCAAATTTATTAGGTTA
*
15825265 GGCTTAGATAACAAGAAATCATTTACTGGCTTGACTCTTGATTTCCCCAGTGGAGTCACTAAATT
66 GGCTTAGATAACAAGAAATCATTTACTGGCTTGACTCTTGATTTCCCCAGTGGAGTCACTAAACT
*
15825330 GTTATAACATATAG
131 ATTATAACATATAG
15825344 AT
1 AT
15825346 CCAGAGACCT
Statistics
Matches: 140, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
144 140 1.00
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.30
Consensus pattern (144 bp):
ATGAATAACTTAATAAAATATAAACAAGGAAAAAGAAAGAAAAAAATCTCAAATTTATTAGGTTA
GGCTTAGATAACAAGAAATCATTTACTGGCTTGACTCTTGATTTCCCCAGTGGAGTCACTAAACT
ATTATAACATATAG
Found at i:15825967 original size:95 final size:95
Alignment explanation
Indices: 15825793--15825978 Score: 227
Period size: 95 Copynumber: 2.0 Consensus size: 95
15825783 ATAATTAGTA
* * * * ***
15825793 AAATCTTTCAATAGTTTGGTAAGATTTACTTTGATATAAATCTCTTAATAGTTTGGTAAGATTTT
1 AAATCTTCCAATAGTTTGGTAAGATTTAATTTAATATAAATCTCTCAATAGTTTGGTAAGATAAA
*
15825858 ATAATAAGATTATTTT-TTAGACAATGCATT
66 ATAATAAGAATATTTTATTA-ACAATGCATT
*
15825888 AAATCTTCCAATAGTTTGGTAAGATTTAATTTAATATGCAAAT-TCTCCAATAGTTTGGTAGGAT
1 AAATCTTCCAATAGTTTGGTAAGATTTAATTTAATAT--AAATCTCT-CAATAGTTTGGTAAGAT
15825952 AAAAT-ATAA-AATATTTTATTAACAATG
63 AAAATAATAAGAATATTTTATTAACAATG
15825979 TTTTTTTTTT
Statistics
Matches: 78, Mismatches: 9, Indels: 8
0.82 0.09 0.08
Matches are distributed among these distances:
95 47 0.60
96 10 0.13
97 21 0.27
ACGTcount: A:0.38, C:0.08, G:0.12, T:0.42
Consensus pattern (95 bp):
AAATCTTCCAATAGTTTGGTAAGATTTAATTTAATATAAATCTCTCAATAGTTTGGTAAGATAAA
ATAATAAGAATATTTTATTAACAATGCATT
Found at i:15826217 original size:18 final size:17
Alignment explanation
Indices: 15826194--15826238 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 17
15826184 TTAAAATTAG
15826194 TAAAATAATAATGATAAA
1 TAAAATAATAATGA-AAA
15826212 TAAAATGAA-AATGAAAA
1 TAAAAT-AATAATGAAAA
15826229 TAAAA-AATAA
1 TAAAATAATAA
15826239 AATAAGAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 2 0.08
16 2 0.08
17 8 0.32
18 11 0.44
19 2 0.08
ACGTcount: A:0.71, C:0.00, G:0.07, T:0.22
Consensus pattern (17 bp):
TAAAATAATAATGAAAA
Found at i:15826654 original size:20 final size:20
Alignment explanation
Indices: 15826629--15826667 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
15826619 AATTTCTCAT
15826629 AAATTC-AACTCTAAACCCAG
1 AAATTCAAAC-CTAAACCCAG
15826649 AAATTCAAACCTAAACCCA
1 AAATTCAAACCTAAACCCA
15826668 CAAACTCGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 15 0.83
21 3 0.17
ACGTcount: A:0.49, C:0.31, G:0.03, T:0.18
Consensus pattern (20 bp):
AAATTCAAACCTAAACCCAG
Found at i:15827407 original size:4 final size:4
Alignment explanation
Indices: 15827398--15827508 Score: 63
Period size: 4 Copynumber: 28.2 Consensus size: 4
15827388 TATTTTTGAA
* * * *
15827398 TATT TATT TAAT TAGT T-TT TATTT TATT T-TT TA-T TGTT TATT T-GT
1 TATT TATT TATT TATT TATT TA-TT TATT TATT TATT TATT TATT TATT
* * *
15827443 TATT T-TT CATTT TATT TCTT T-TA TATT TATT TCATTT TATT TATT TATT
1 TATT TATT TA-TT TATT TATT TATT TATT TATT T-A-TT TATT TATT TATT
* *
15827492 TATT TACT TATT GATT T
1 TATT TATT TATT TATT T
15827509 GGTCTTTAAA
Statistics
Matches: 81, Mismatches: 16, Indels: 20
0.69 0.14 0.17
Matches are distributed among these distances:
3 13 0.16
4 56 0.69
5 9 0.11
6 3 0.04
ACGTcount: A:0.21, C:0.04, G:0.04, T:0.72
Consensus pattern (4 bp):
TATT
Found at i:15827426 original size:34 final size:33
Alignment explanation
Indices: 15827381--15827474 Score: 102
Period size: 34 Copynumber: 2.8 Consensus size: 33
15827371 TTATCTTTAA
*
15827381 TTTC-TTTTATTTTTGAATATTTATTTAATTAGTT
1 TTTCATTTTATTTTTTAATATTTATTT-ATTA-TT
* * *
15827415 TTT-ATTTTATTTTTTATTGTTTATTTGTTATT
1 TTTCATTTTATTTTTTAATATTTATTTATTATT
*
15827447 TTTCATTTTATTTCTTTTATATTTATTT
1 TTTCATTTTATTT-TTTAATATTTATTT
15827475 CATTTTATTT
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
32 5 0.10
33 12 0.24
34 33 0.66
ACGTcount: A:0.19, C:0.03, G:0.04, T:0.73
Consensus pattern (33 bp):
TTTCATTTTATTTTTTAATATTTATTTATTATT
Found at i:15827439 original size:14 final size:13
Alignment explanation
Indices: 15827385--15827492 Score: 58
Period size: 14 Copynumber: 7.6 Consensus size: 13
15827375 CTTTAATTTC
*
15827385 TTTTATTTTTGAAT
1 TTTTATTTTT-ATT
* *
15827399 ATTTATTTAATTAGT
1 TTTTATTT--TTATT
15827414 TTTTA-TTTTATT
1 TTTTATTTTTATT
15827426 TTTTATTGTTTATT
1 TTTTATT-TTTATT
*
15827440 TGTTATTTTTCATTT
1 TTTTATTTTT-A-TT
*
15827455 TATTTCTTTTATATT
1 T-TTTATTTT-TATT
15827470 TATTTCA-TTTTATT
1 T-TTT-ATTTTTATT
15827484 TATTTATTT
1 T-TTTATTT
15827493 ATTTACTTAT
Statistics
Matches: 76, Mismatches: 8, Indels: 20
0.73 0.08 0.19
Matches are distributed among these distances:
12 9 0.12
13 5 0.07
14 33 0.43
15 19 0.25
16 9 0.12
17 1 0.01
ACGTcount: A:0.20, C:0.03, G:0.04, T:0.73
Consensus pattern (13 bp):
TTTTATTTTTATT
Found at i:15827471 original size:15 final size:14
Alignment explanation
Indices: 15827453--15827497 Score: 58
Period size: 15 Copynumber: 3.3 Consensus size: 14
15827443 TATTTTTCAT
*
15827453 TTTATTTCTTTTATA
1 TTTATTTCATTT-TA
15827468 TTTATTTCATTTTA
1 TTTATTTCATTTTA
15827482 TTTATTT-A-TTTA
1 TTTATTTCATTTTA
15827494 TTTA
1 TTTA
15827498 CTTATTGATT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
12 8 0.28
13 1 0.03
14 9 0.31
15 11 0.38
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.73
Consensus pattern (14 bp):
TTTATTTCATTTTA
Found at i:15829205 original size:16 final size:16
Alignment explanation
Indices: 15829181--15829211 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15829171 TATTTTGTTA
15829181 TTTTAAATAAAAAAAT
1 TTTTAAATAAAAAAAT
*
15829197 TTTTGAATAAAAAAA
1 TTTTAAATAAAAAAA
15829212 ACTTACTAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.35
Consensus pattern (16 bp):
TTTTAAATAAAAAAAT
Found at i:15832520 original size:70 final size:70
Alignment explanation
Indices: 15832437--15832573 Score: 195
Period size: 70 Copynumber: 2.0 Consensus size: 70
15832427 AAGCATGTAA
** * * * *
15832437 AAAAAATTTAAAAAAAAAACATGTTTAGGAAGT-GAAAAGGACAAATGTCTTTGTGAAAAGAATA
1 AAAAAATAGAAAAAAAAAACATGTTTAGGAAGTAG-AAAGGACAAATATCATTATAAAAAGAATA
15832501 TGAATG
65 TGAATG
*
15832507 AAAAAATAGAAAAAAAAAACATGTTTGGGAAGTAGAAAGGACAAATATCATTATAAAAAGAATAT
1 AAAAAATAGAAAAAAAAAACATGTTTAGGAAGTAGAAAGGACAAATATCATTATAAAAAGAATAT
15832572 GA
66 GA
15832574 TCCTTAATTT
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
70 58 0.98
71 1 0.02
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (70 bp):
AAAAAATAGAAAAAAAAAACATGTTTAGGAAGTAGAAAGGACAAATATCATTATAAAAAGAATAT
GAATG
Done.