Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 347 of 438
Found at i:108362406 original size:40 final size:40
Alignment explanation
Indices: 108362347--108362554 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 40
108362337 CAATTGAATG
* * * *
108362347 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
108362387 ATATCCGGGTTAAGACCCGAAGGCCA-TTGTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTTGTGCAAGTAATT
* * **
108362427 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
108362467 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
108362507 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
108362547 ATATCCGG
1 ATATCCGG
108362555 TTGTATTCCG
Statistics
Matches: 140, Mismatches: 26, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
39 2 0.01
40 136 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:108362485 original size:80 final size:80
Alignment explanation
Indices: 108362349--108362554 Score: 236
Period size: 80 Copynumber: 2.6 Consensus size: 80
108362339 ATTGAATGAT
* * ** * * *
108362349 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCCA-
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGG-CAT
*
108362413 TTGTGCTAGT-GACCAC
65 TTGTGCAAGTCGACC-C
* * *
108362429 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
** *
108362494 TGTGCAAGTCGTTCT
66 TGTGCAAGTCGACCC
* *
108362509 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
108362555 TTGTATTCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
79 2 0.02
80 103 0.96
81 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
TGTGCAAGTCGACCC
Found at i:108365046 original size:39 final size:40
Alignment explanation
Indices: 108364882--108365047 Score: 89
Period size: 39 Copynumber: 4.1 Consensus size: 40
108364872 TAATAAGAAT
* *
108364882 AATATTAAAGTAAAGTAA-AC---AATAATACTATATATA
1 AATATTAAATTAAAGTAATACAAAAACAATACTATATATA
* * * *
108364918 ATATATATATATGTATA-TAATAGAAATACACACTACTATATAATAA
1 A-ATAT-TAAAT-TAAAGTAATACAAA-A-ACAATACTATAT-AT-A
* * * *
108364964 TAATAATAAA-TATAGAAATACAAAAAGCAA-A-TATAATAAA
1 -AATATTAAATTAAAGTAATACAAAAA-CAATACTAT-ATATA
108365004 AATATTAAATTAAAGTAATA-AAAAACAATACTATATATA
1 AATATTAAATTAAAGTAATACAAAAACAATACTATATATA
108365043 AATAT
1 AATAT
108365048 ATATATATAT
Statistics
Matches: 96, Mismatches: 16, Indels: 33
0.66 0.11 0.23
Matches are distributed among these distances:
36 1 0.01
37 4 0.04
38 9 0.09
39 27 0.28
40 12 0.12
41 4 0.04
42 4 0.04
43 8 0.08
44 17 0.18
45 5 0.05
46 4 0.04
47 1 0.01
ACGTcount: A:0.60, C:0.06, G:0.04, T:0.30
Consensus pattern (40 bp):
AATATTAAATTAAAGTAATACAAAAACAATACTATATATA
Found at i:108365064 original size:39 final size:40
Alignment explanation
Indices: 108364905--108365066 Score: 97
Period size: 39 Copynumber: 4.0 Consensus size: 40
108364895 AGTAAACAAT
* *
108364905 AATACTATATATAATATATATATATGTATATAATAGAAATACAC
1 AATACTATATATAA-ATATATAAAT-TATATAATACAAA-A-AC
* *
108364949 ACTACTATATA-ATAATAATAATAAA-TATAGAAATACAAAAAGC
1 AATACTATATATA-AAT-AT-ATAAATTATA-TAATACAAAAA-C
* *
108364992 AA-A-TATA-ATAAAAATATTAAATTAAAGTAATA-AAAAAC
1 AATACTATATATAAATATA-TAAATTATA-TAATACAAAAAC
*
108365030 AATACTATATATAAATATATATA-TATATACATA-AAAA
1 AATACTATATATAAATATATAAATTATATA-ATACAAAA
108365067 TATACACTAA
Statistics
Matches: 95, Mismatches: 11, Indels: 29
0.70 0.08 0.21
Matches are distributed among these distances:
38 6 0.06
39 22 0.23
40 18 0.19
41 13 0.14
42 2 0.02
43 10 0.11
44 20 0.21
45 4 0.04
ACGTcount: A:0.60, C:0.06, G:0.03, T:0.31
Consensus pattern (40 bp):
AATACTATATATAAATATATAAATTATATAATACAAAAAC
Found at i:108365305 original size:3 final size:3
Alignment explanation
Indices: 108365292--108365378 Score: 67
Period size: 3 Copynumber: 29.3 Consensus size: 3
108365282 GATGGCATAT
* *
108365292 ATA AT- ATA ATA AT- ATAA ATA ATA ATA TATA CATG AGA ATA ATA ATA
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -ATA ATA ATA ATA ATA
* *
108365338 ATA AT- ATAA ATA ATA GTA AAA ATA ATA A-A ATA ATA A-A ATA A
1 ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
108365379 AGCTCTCAAC
Statistics
Matches: 67, Mismatches: 9, Indels: 16
0.73 0.10 0.17
Matches are distributed among these distances:
2 10 0.15
3 48 0.72
4 9 0.13
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:108365314 original size:12 final size:12
Alignment explanation
Indices: 108365290--108365370 Score: 74
Period size: 12 Copynumber: 6.5 Consensus size: 12
108365280 GAGATGGCAT
108365290 ATATAATATAATA
1 ATATAA-ATAATA
108365303 ATATAAATAATA
1 ATATAAATAATA
* *
108365315 ATATATACATGAGA
1 ATATA-A-ATAATA
108365329 ATA-ATAATAATA
1 ATATA-AATAATA
108365341 ATATAAATAATA
1 ATATAAATAATA
* *
108365353 GTAAAAATAATA
1 ATATAAATAATA
*
108365365 AAATAA
1 ATATAA
108365371 TAAAATAAAG
Statistics
Matches: 56, Mismatches: 9, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
12 38 0.68
13 11 0.20
14 7 0.12
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (12 bp):
ATATAAATAATA
Found at i:108365370 original size:38 final size:38
Alignment explanation
Indices: 108365292--108365378 Score: 101
Period size: 38 Copynumber: 2.3 Consensus size: 38
108365282 GATGGCATAT
* * *
108365292 ATAAT-ATAATAATATAAATAATAATATATACATGAGA
1 ATAATAATAATAATATAAATAATAAAAAATACATGAAA
108365329 ATAATAATAATAATATAAATAATAGTAAAAATA-AT-AAA
1 ATAATAATAATAATATAAATAATA--AAAAATACATGAAA
108365367 ATAATAA-AATAA
1 ATAATAATAATAA
108365379 AGCTCTCAAC
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
37 10 0.23
38 27 0.61
39 2 0.05
40 5 0.11
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (38 bp):
ATAATAATAATAATATAAATAATAAAAAATACATGAAA
Found at i:108365764 original size:20 final size:19
Alignment explanation
Indices: 108365707--108365766 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 19
108365697 TCTTTTCAAA
108365707 AAAACAAAAAAACA-CCTCC
1 AAAAC-AAAAAACATCCTCC
*
108365726 AAAAAACAAAAAACCTCCTCC
1 --AAAACAAAAAACATCCTCC
*
108365747 AAAACAAAGAACAATCCTCC
1 AAAACAAAAAAC-ATCCTCC
108365767 TCCAAAAAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
19 11 0.32
20 13 0.38
21 10 0.29
ACGTcount: A:0.58, C:0.32, G:0.02, T:0.08
Consensus pattern (19 bp):
AAAACAAAAAACATCCTCC
Found at i:108365780 original size:26 final size:22
Alignment explanation
Indices: 108365705--108365781 Score: 81
Period size: 21 Copynumber: 3.5 Consensus size: 22
108365695 CTTCTTTTCA
*
108365705 AAAAAACAAAAAAA-CACCTCC
1 AAAAAACAAAAAAACCTCCTCC
108365726 AAAAAAC-AAAAAACCTCCTCC
1 AAAAAACAAAAAAACCTCCTCC
108365747 --AAAACAAAGAACAATCCTCCTCC
1 AAAAAACAAA-AA-AA-CCTCCTCC
*
108365770 AAAAAACCAAAA
1 AAAAAACAAAAA
108365782 CCCCCCCTAA
Statistics
Matches: 47, Mismatches: 2, Indels: 11
0.78 0.03 0.18
Matches are distributed among these distances:
19 5 0.11
20 8 0.17
21 15 0.32
22 2 0.04
23 8 0.17
24 2 0.04
25 7 0.15
ACGTcount: A:0.61, C:0.30, G:0.01, T:0.08
Consensus pattern (22 bp):
AAAAAACAAAAAAACCTCCTCC
Found at i:108366340 original size:44 final size:44
Alignment explanation
Indices: 108366291--108366709 Score: 429
Period size: 44 Copynumber: 9.6 Consensus size: 44
108366281 TCTTCGATCC
*
108366291 GTTCCCTATAAGCACAGGGATACCAAATCTGATGTTTTCAACTT
1 GTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTT
*
108366335 TTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTT
1 GTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTT
108366379 GTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTT
1 GTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTT
* ** * *
108366423 GTTCCCTATAACCACAGGGATGCC--ATGCTGAAATCTTTGATC-T
1 GTTCCCTATAAGCACAGGGATGCCAAAT-CTGATGT-TTTCAACTT
* * * * * * * * * *
108366466 GCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTT
1 G-TTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTT
*
108366511 GTTCCCTATAAGCACA-GGATGCCAAATCTGCTGTTTTCAACTT
1 GTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTT
** ** * *
108366554 GTTCCCTA-AAGCACAGGGATGCCATGT-TGAAATCTTTGATC-T
1 GTTCCCTATAAGCACAGGGATGCCAAATCTGATGT-TTTCAACTT
* * * * * * * * * *
108366596 GCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTT
1 G-TTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTT
*
108366641 GTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTT
1 GTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTT
108366685 GTTCCCTATAAGCACAGGGATGCCA
1 GTTCCCTATAAGCACAGGGATGCCA
108366710 TGCTGAAATC
Statistics
Matches: 305, Mismatches: 58, Indels: 24
0.79 0.15 0.06
Matches are distributed among these distances:
42 14 0.05
43 54 0.18
44 222 0.73
45 13 0.04
46 2 0.01
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.32
Consensus pattern (44 bp):
GTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTT
Found at i:108366513 original size:132 final size:132
Alignment explanation
Indices: 108366377--108366777 Score: 734
Period size: 132 Copynumber: 3.1 Consensus size: 132
108366367 TGTTTTCAAC
* *
108366377 TTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAACCACAGGG
1 TTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGG
108366442 ATGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCG
66 ATGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCG
108366507 AT
131 AT
108366509 TTGTTCCCTATAAGCACA-GGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTA-AAGCACAGGG
1 TTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGG
*
108366572 ATGCCATGTTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCG
66 ATGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCG
108366637 AT
131 AT
108366639 TTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGG
1 TTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGG
*
108366704 ATGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCG
66 ATGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCG
*
108366769 GT
131 AT
*
108366771 CTGTTCC
1 TTGTTCC
108366778 TCTGCAACTT
Statistics
Matches: 260, Mismatches: 7, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
130 93 0.36
131 69 0.27
132 98 0.38
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (132 bp):
TTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGG
ATGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCG
AT
Found at i:108366741 original size:44 final size:43
Alignment explanation
Indices: 108366232--108366777 Score: 269
Period size: 44 Copynumber: 12.4 Consensus size: 43
108366222 GGCGATATCC
* * * * * *
108366232 GCTATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCA-GATTT
1 GCTATCTTCGATCTG-TTCCCTATAAGCACAGGGATGCCATG--CT
* *
108366277 GCTATCTTCGATCCGTTCCCTATAAGCACAGGGATACCAAAT-CT
1 GCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCC--ATGCT
* * * * *
108366321 GATGTTTTC-AACTTTTTCCCTATAAGCACAGGGATGCCAAAT-CT
1 GCTATCTTCGATC-TGTTCCCTATAAGCACAGGGATGCC--ATGCT
* * * *
108366365 GATGTTTTC-AACTTGTTCCCTATAAGCACAGGGATGCCAAAT-CT
1 GCTATCTTCGATC-TGTTCCCTATAAGCACAGGGATGCC--ATGCT
* * * * *
108366409 GATGTTTTC-AACTTGTTCCCTATAACCACAGGGATGCCATGCT
1 GCTATCTTCGATC-TGTTCCCTATAAGCACAGGGATGCCATGCT
** * * * * *
108366452 GAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCA-GATCT
1 GCTATCTTCGATCTG-TTCCCTATAAGCACAGGGATGCCATG--CT
*
108366497 GCTATCTTCGATTTGTTCCCTATAAGCACA-GGATGCCAAAT-CT
1 GCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCC--ATGCT
* * * *
108366540 GCTGTTTTC-AACTTGTTCCCTA-AAGCACAGGGATGCCATGTT
1 GCTATCTTCGATC-TGTTCCCTATAAGCACAGGGATGCCATGCT
** * * * * *
108366582 GAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCA-GATCT
1 GCTATCTTCGATCTG-TTCCCTATAAGCACAGGGATGCCATG--CT
*
108366627 GCTATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAAAT-CT
1 GCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCC--ATGCT
* * *
108366671 GCTGTTTTC-AACTTGTTCCCTATAAGCACAGGGATGCCATGCT
1 GCTATCTTCGATC-TGTTCCCTATAAGCACAGGGATGCCATGCT
** * * * *
108366714 GAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCA-GATCT
1 GCTATCTTCGATCTG-TTCCCTATAAGCACAGGGATGCCATG--CT
*
108366759 GCTATCTTCGGTCTGTTCC
1 GCTATCTTCGATCTGTTCC
108366778 TCTGCAACTT
Statistics
Matches: 396, Mismatches: 76, Indels: 59
0.75 0.14 0.11
Matches are distributed among these distances:
41 2 0.01
42 19 0.05
43 61 0.15
44 259 0.65
45 53 0.13
46 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (43 bp):
GCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCATGCT
Found at i:108366761 original size:88 final size:87
Alignment explanation
Indices: 108366279--108366746 Score: 414
Period size: 88 Copynumber: 5.3 Consensus size: 87
108366269 TCAGATTTGC
* * *
108366279 TATCTTCGATCCGTTCCCTATAAGCACAGGGATACCAAATCTGATGTTTTCAACTTTTTCCCTAT
1 TATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTAT
108366344 AAGCACAGGGATGCCAAAT-CTGA
66 AAGCACAGGGATGCC--ATGCTGA
* * *
108366367 TGTTTTC-AACTTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTA
1 TATCTTCGATC-TGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTA
*
108366431 TAACCACAGGGATGCCATGCTGA
65 TAAGCACAGGGATGCCATGCTGA
* * * * * * * * * * * *
108366454 AATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTA
1 TATCTTCGATCTG-TTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTA
*
108366519 TAAGCACA-GGATGCCAAAT-CTGC
65 TAAGCACAGGGATGCC--ATGCTGA
* * * ** ** * * *
108366542 TGTTTTC-AACTTGTTCCCTA-AAGCACAGGGATGCCATGT-TGAAATCTTTGATC-TGCTTCAC
1 TATCTTCGATC-TGTTCCCTATAAGCACAGGGATGCCAAATCTGATGT-TTTCAACTTG-TTCCC
* * * *
108366603 TGTAAGCACAGGAATGTCA-GATCTGC
63 TATAAGCACAGGGATGCCATG--CTGA
* *
108366629 TATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTAT
1 TATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTAT
108366694 AAGCACAGGGATGCCATGCTGA
66 AAGCACAGGGATGCCATGCTGA
* * *
108366716 AATCTTCGATCTGCTTCACTGTAAGCACAGG
1 TATCTTCGATCTG-TTCCCTATAAGCACAGG
108366747 AATGTCAGAT
Statistics
Matches: 295, Mismatches: 66, Indels: 38
0.74 0.17 0.10
Matches are distributed among these distances:
85 7 0.02
86 32 0.11
87 62 0.21
88 186 0.63
89 8 0.03
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.32
Consensus pattern (87 bp):
TATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTAT
AAGCACAGGGATGCCATGCTGA
Found at i:108366930 original size:68 final size:68
Alignment explanation
Indices: 108366821--108367019 Score: 267
Period size: 68 Copynumber: 2.9 Consensus size: 68
108366811 TCTTCTTCTA
* * * * *
108366821 CTGAAACTTCAAGGAGATCTGCTGTGGCTTTAAGCCTCTCCAATGCCATTTCTGGAAGAAGAGGT
1 CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGGAAGAAAAGAT
*
108366886 -TT
66 CCT
* * *
108366888 GCTGAAACTTGAAGGAGATCTGTTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGAAGAAAAGA
1 -CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGGAAGAAAAGA
108366953 TCCT
65 TCCT
* * *
108366957 CTGAAACTTCAAAGAGATCTGCTGTAGCTTTTAGCCGCTCCAATGCCATTTCAGGGA-AAAAGA
1 CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGGAAGAAAAGA
108367020 AATTTGTAAT
Statistics
Matches: 115, Mismatches: 15, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
67 6 0.05
68 108 0.94
69 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (68 bp):
CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGGAAGAAAAGAT
CCT
Found at i:108367159 original size:43 final size:43
Alignment explanation
Indices: 108367091--108367926 Score: 338
Period size: 43 Copynumber: 19.4 Consensus size: 43
108367081 CTATTTCCCA
* * * *
108367091 ACTGCTTAAGGGGATAAGATCTGTAAATTCAACCTGTTACCCT
1 ACTGCTTAGGGGGTTAAGATTTGTAAATTCGACCTGTTACCCT
*
108367134 ACTGGTTAGGGGGTTAAGATTTGTAAATCTTC-AGCCTGTTACCCT
1 ACTGCTTAGGGGGTTAAGATTTGTAAA--TTCGA-CCTGTTACCCT
* * * *
108367179 ACTGCTTAGGGGTTTAAGGTTTGTAAATTCGGCTTGTTACCCT
1 ACTGCTTAGGGGGTTAAGATTTGTAAATTCGACCTGTTACCCT
* *** * ** ** * *
108367222 ACTGCTTAGAGGGTTAAAGCCCAT-CATTTTTTATCTGTTTCCCT
1 ACTGCTTAGGGGGTT-AAG-ATTTGTAAATTCGACCTGTTACCCT
* * *
108367266 ACTACTTA--GGGTTAAGATCTGT---TTC-AGCCAGTTACCCT
1 ACTGCTTAGGGGGTTAAGATTTGTAAATTCGA-CCTGTTACCCT
* ** * *
108367304 ACTGCTTAGGGGTTTAAGGCTTGTAAATTCGGCTTGTTACCCT
1 ACTGCTTAGGGGGTTAAGATTTGTAAATTCGACCTGTTACCCT
*** * ** * * *
108367347 ACTGCTTA-GGGGTTAAAGCCCAT-CATCTTTGATCTGTTTCCCT
1 ACTGCTTAGGGGGTT-AAG-ATTTGTAAATTCGACCTGTTACCCT
* * *
108367390 ACTGCTTAGGGGGTTAAGATCTGTAAATCTC-AGCTGTTGCCCT
1 ACTGCTTAGGGGGTTAAGATTTGTAAAT-TCGACCTGTTACCCT
** * * *
108367433 ACTGCTTAGGGGGTTAAGGCTTGTAAATTTGGCTTGTTACCCT
1 ACTGCTTAGGGGGTTAAGATTTGTAAATTCGACCTGTTACCCT
* * * ** * *
108367476 ACTGCTTAGGGGGTTAAAGCCTAT-CATCTTCGATCTGTTTCCCT
1 ACTGCTTAGGGGGTT-AAG-ATTTGTAAATTCGACCTGTTACCCT
* ** * *
108367520 ACTGCTTAGGGGGTTAAGATCTT-CATCTTCGATCTGTTTCCCT
1 ACTGCTTAGGGGGTTAAGAT-TTGTAAATTCGACCTGTTACCCT
* * * **
108367563 ACTGCTTAGGGAGATAAGATCTGT-AATTCGGTCTGTTACCCT
1 ACTGCTTAGGGGGTTAAGATTTGTAAATTCGACCTGTTACCCT
* * * * * * *
108367605 ACCGATTAGGGGTTTAAGACCCTTCGT--CTTCGATCTGTTTCCCT
1 ACTGCTTAGGGGGTTAAGA---TTTGTAAATTCGACCTGTTACCCT
*
108367649 ACTG-TTAGGGGGTTAAGATCTGTAAATCTTC-AGCCTGTTACCCT
1 ACTGCTTAGGGGGTTAAGATTTGTAAA--TTCGA-CCTGTTACCCT
*** * ** * * *
108367693 ACTGCTTAGGGGGTTAAAGCCCAT-CATCTTC-ATCTATTTCCCT
1 ACTGCTTAGGGGGTT-AAG-ATTTGTAAATTCGACCTGTTACCCT
* ** * *
108367736 ACTGCTTAGGGGGTTAAGATCTT-CATCTTCGATCTGTTTCCCT
1 ACTGCTTAGGGGGTTAAGAT-TTGTAAATTCGACCTGTTACCCT
* * * * * **
108367779 ACTGCTTAGGGAGATGAGATCTG-CAATTCGGTCTGTTACCCT
1 ACTGCTTAGGGGGTTAAGATTTGTAAATTCGACCTGTTACCCT
* * * * * * *
108367821 ACCGATTAGGGGTTTAAGACCCTTCGT--CTTCGATCTGTT-TCCT
1 ACTGCTTAGGGGGTTAAGA---TTTGTAAATTCGACCTGTTACCCT
*
108367864 ACTGCTTAGGGGGTTAAGATCTGTAAATCTTC-AGCCTGTTACCCT
1 ACTGCTTAGGGGGTTAAGATTTGTAAA--TTCGA-CCTGTTACCCT
* *
108367909 ATTGCTTAGGGGCTTAAG
1 ACTGCTTAGGGGGTTAAG
108367927 GCTTGTGAAT
Statistics
Matches: 596, Mismatches: 149, Indels: 94
0.71 0.18 0.11
Matches are distributed among these distances:
37 1 0.00
38 17 0.03
40 17 0.03
41 3 0.01
42 81 0.14
43 282 0.47
44 116 0.19
45 74 0.12
46 4 0.01
47 1 0.00
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (43 bp):
ACTGCTTAGGGGGTTAAGATTTGTAAATTCGACCTGTTACCCT
Found at i:108367529 original size:130 final size:132
Alignment explanation
Indices: 108367124--108367789 Score: 782
Period size: 130 Copynumber: 5.2 Consensus size: 132
108367114 TAAATTCAAC
* * *
108367124 CTGTTACCCTACTGGTTAGGGGGTTAAGATTTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
* * * * * **
108367189 GGTTTAAGGTTTGTAAATTCGGCTTGTTACCCTACTGCTTAGAGGGTTAAAGCCCATCATTTTTT
66 GGGTTAAGGCTTGTAAATTCGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCTATCATCTTCG
108367254 AT
131 AT
* *
108367256 CTGTTTCCCTACTACTTA--GGGTTAAGATCTG----T-TTCAGCCAGTTACCCTACTGCTTAGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
* * *
108367314 GGTTTAAGGCTTGTAAATTCGGCTTGTTACCCTACTGCTTA-GGGGTTAAAGCCCATCATCTTTG
66 GGGTTAAGGCTTGTAAATTCGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCTATCATCTTCG
108367378 AT
131 AT
*
108367380 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATC-TCAG-CTGTTGCCCTACTGCTTAGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
*
108367443 GGGTTAAGGCTTGTAAATTTGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCTATCATCTTCG
66 GGGTTAAGGCTTGTAAATTCGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCTATCATCTTCG
108367508 AT
131 AT
* * *
108367510 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCT-T-CATCTTC-GATCTGTTTCCCTACTGCTTAG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAG-CCTGTTACCCTACTGCTTAG
* * * * * * * *
108367572 GGAGATAA-GATCTGT-AATTCGG-TCTGTTACCCTACCGATTAGGGGTTTAAGACCCT-TCGTC
65 GGGGTTAAGGCT-TGTAAATTCGGCT-TGTTACCCTACTGCTTAGGGGGTTAA-AGCCTATCATC
108367633 TTCGAT
127 TTCGAT
108367639 CTGTTTCCCTACTG-TTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
* *** ** ** *
108367703 GGGTTAAAGCCCATCATCTTCATCTAT-TT-CCCTACTGCTTAGGGGGTT-AAGATCT-TCATCT
66 GGGTTAAGGCTTGT-AAATTCGGCT-TGTTACCCTACTGCTTAGGGGGTTAAAG-CCTATCATCT
108367764 TCGAT
128 TCGAT
108367769 CTGTTTCCCTACTGCTTAGGG
1 CTGTTTCCCTACTGCTTAGGG
108367790 AGATGAGATC
Statistics
Matches: 464, Mismatches: 47, Indels: 47
0.83 0.08 0.08
Matches are distributed among these distances:
124 39 0.08
125 65 0.14
126 14 0.03
128 22 0.05
129 117 0.25
130 161 0.35
131 24 0.05
132 20 0.04
133 2 0.00
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (132 bp):
CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
GGGTTAAGGCTTGTAAATTCGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCTATCATCTTCG
AT
Found at i:108367548 original size:173 final size:170
Alignment explanation
Indices: 108367338--108367880 Score: 514
Period size: 173 Copynumber: 3.2 Consensus size: 170
108367328 AAATTCGGCT
*
108367338 TGTTACCCTACTGCTTA-GGGGTTAAAGCCCATCATCTTTGATCTGTTTCCCTACTGCTTAGGGG
1 TGTTACCCTACTGCTTAGGGGGTTAAAGACCATCATCTTTGATCTGTTTCCCTACTGCTTAGGGG
*
108367402 GTTAAGATCTGTAAATCTCAGCTGTTGCCCTACTGCTTAGGGGGTTAAGGCTTGTAAATTTGG-C
66 GTTAAGATCTGT-AATCTCAGCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGT-AATTTGGTC
108367466 TTGTTACCCTACTGCTTAGGGGGTTAAAGCCTATCATCTTCGATC
129 -TGTTACCCTACTG-TTAGGGGGTTAAAGCCT-TCATCTTCGATC
* * * * *
108367511 TGTTTCCCTACTGCTTAGGGGGTT-AAGATCTTCATCTTCGATCTGTTTCCCTACTGCTTAGGGA
1 TGTTACCCTACTGCTTAGGGGGTTAAAGACCATCATCTTTGATCTGTTTCCCTACTGCTTAGGGG
* * * * * * * * *
108367575 GATAAGATCTGTAAT-TCGGTCTGTTACCCTACCGATTAGGGGTTTAAGACCCTTCGT-CTTCGA
66 GTTAAGATCTGTAATCTCAG-CTGTTACCCTACTGCTTAGGGGGTTAAG--GCTT-GTAATTTGG
* * * *
108367638 TCTGTTTCCCTACTGTTAGGGGGTT-AAGATCTGTAAATCTTC-AGCC
127 TCTGTTACCCTACTGTTAGGGGGTTAAAG-CCT-T-CATCTTCGA-TC
* * *
108367684 TGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATC-TTCATCTATTTCCCTACTGCTTAGGGG
1 TGTTACCCTACTGCTTAGGGGGTTAAAGACCATCATCTTTGATCTGTTTCCCTACTGCTTAGGGG
* * * * * * * * *
108367748 GTTAAGATCT-TCATCTTCGATCTGTTTCCCTACTGCTTAGGGAGATGA-GATCTGCAATTCGGT
66 GTTAAGATCTGTAATC-TC-AGCTGTTACCCTACTGCTTAGGGGGTTAAGGCT-TGTAATTTGGT
* * * *
108367811 CTGTTACCCTACCGATTAGGGGTTTAAGACCCTTCGTCTTCGATC
128 CTGTTACCCTACTG-TTAGGGGGTTAA-AGCCTTCATCTTCGATC
*
108367856 TGTT-TCCTACTGCTTAGGGGGTTAA
1 TGTTACCCTACTGCTTAGGGGGTTAA
108367881 GATCTGTAAA
Statistics
Matches: 297, Mismatches: 54, Indels: 40
0.76 0.14 0.10
Matches are distributed among these distances:
171 28 0.09
172 72 0.24
173 150 0.51
174 44 0.15
175 3 0.01
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (170 bp):
TGTTACCCTACTGCTTAGGGGGTTAAAGACCATCATCTTTGATCTGTTTCCCTACTGCTTAGGGG
GTTAAGATCTGTAATCTCAGCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGTAATTTGGTCTG
TTACCCTACTGTTAGGGGGTTAAAGCCTTCATCTTCGATC
Found at i:108367651 original size:216 final size:217
Alignment explanation
Indices: 108367423--108367925 Score: 863
Period size: 216 Copynumber: 2.3 Consensus size: 217
108367413 TAAATCTCAG
* * * *
108367423 CTGTTGCCCTACTGCTTAGGGGGTTAAG-GCTTGTAAAT-TT-GGCTTGTTACCCTACTGCTTAG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATC-TGTAAATCTTCAGCCTGTTACCCTACTGCTTAG
* *
108367485 GGGGTTAAAGCCTATCATCTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTTCATCTTC
65 GGGGTTAAAGCCCATCATCTTC-ATCTATTTCCCTACTGCTTAGGGGGTTAAGATCTTCATCTTC
*
108367550 GATCTGTTTCCCTACTGCTTAGGGAGATAAGATCTGTAATTCGGTCTGTTACCCTACCGATTAGG
129 GATCTGTTTCCCTACTGCTTAGGGAGATAAGATCTGCAATTCGGTCTGTTACCCTACCGATTAGG
108367615 GGTTTAAGACCCTTCGTCTTCGAT
194 GGTTTAAGACCCTTCGTCTTCGAT
108367639 CTGTTTCCCTACTG-TTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
108367703 GGGTTAAAGCCCATCATCTTCATCTATTTCCCTACTGCTTAGGGGGTTAAGATCTTCATCTTCGA
66 GGGTTAAAGCCCATCATCTTCATCTATTTCCCTACTGCTTAGGGGGTTAAGATCTTCATCTTCGA
*
108367768 TCTGTTTCCCTACTGCTTAGGGAGATGAGATCTGCAATTCGGTCTGTTACCCTACCGATTAGGGG
131 TCTGTTTCCCTACTGCTTAGGGAGATAAGATCTGCAATTCGGTCTGTTACCCTACCGATTAGGGG
108367833 TTTAAGACCCTTCGTCTTCGAT
196 TTTAAGACCCTTCGTCTTCGAT
*
108367855 CTGTTT-CCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTATTGCTTAGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
*
108367919 GGCTTAA
66 GGGTTAA
108367926 GGCTTGTGAA
Statistics
Matches: 273, Mismatches: 10, Indels: 8
0.94 0.03 0.03
Matches are distributed among these distances:
215 27 0.10
216 205 0.75
217 41 0.15
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (217 bp):
CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
GGGTTAAAGCCCATCATCTTCATCTATTTCCCTACTGCTTAGGGGGTTAAGATCTTCATCTTCGA
TCTGTTTCCCTACTGCTTAGGGAGATAAGATCTGCAATTCGGTCTGTTACCCTACCGATTAGGGG
TTTAAGACCCTTCGTCTTCGAT
Found at i:108368096 original size:66 final size:66
Alignment explanation
Indices: 108367990--108368113 Score: 230
Period size: 66 Copynumber: 1.9 Consensus size: 66
108367980 TCTATGCTTA
*
108367990 TGTCAAATGATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGTTATGAAT
1 TGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGTTATGAAT
108368055 G
66 G
*
108368056 TGTCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAGATGTGT
1 TGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGT
108368114 ATTATATGAA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 56 1.00
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.32
Consensus pattern (66 bp):
TGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGTTATGAAT
G
Found at i:108369258 original size:1 final size:1
Alignment explanation
Indices: 108369254--108369305 Score: 50
Period size: 1 Copynumber: 52.0 Consensus size: 1
108369244 TTTTTTAGAA
* * * * * *
108369254 TTTTTTTGTTTTTTTTTGTTTTTGTTTTTGTTTTTGTGTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
108369306 GCCTTTGCCT
Statistics
Matches: 39, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 39 1.00
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (1 bp):
T
Found at i:108369275 original size:6 final size:6
Alignment explanation
Indices: 108369256--108369306 Score: 65
Period size: 6 Copynumber: 9.0 Consensus size: 6
108369246 TTTTAGAATT
108369256 TTTTTG -TTTT- TTTTTG TTTTTG TTTTTG TTTTTG TGTTTT- TTTTT-
1 TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG T-TTTTG TTTTTG
108369301 TTTTTG
1 TTTTTG
108369307 CCTTTGCCTT
Statistics
Matches: 41, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
5 17 0.41
6 20 0.49
7 4 0.10
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (6 bp):
TTTTTG
Found at i:108369276 original size:30 final size:29
Alignment explanation
Indices: 108369231--108369300 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 29
108369221 CCAGCTTCTC
* *
108369231 TTTTTTTCTGCTTTTTTTTAGAATTTTTTTG
1 TTTTTTTTTGCTTTTTTTTAG--TTTTTGTG
* *
108369262 TTTTTTTTTGTTTTTGTTTTTGTTTTTGTG
1 TTTTTTTTTGCTTTT-TTTTAGTTTTTGTG
108369292 TTTTTTTTT
1 TTTTTTTTT
108369301 TTTTTGCCTT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
30 16 0.47
31 13 0.38
32 5 0.15
ACGTcount: A:0.04, C:0.03, G:0.11, T:0.81
Consensus pattern (29 bp):
TTTTTTTTTGCTTTTTTTTAGTTTTTGTG
Found at i:108369318 original size:29 final size:30
Alignment explanation
Indices: 108369260--108369318 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
108369250 AGAATTTTTT
** **
108369260 TGTTTTTTTTTGTTTTTGTTTTTGTTTTTG
1 TGTTTTTTTTTGTTTTTGCCTTTGCCTTTG
108369290 TGTTTTTTTTT-TTTTTGCCTTTGCCTTTG
1 TGTTTTTTTTTGTTTTTGCCTTTGCCTTTG
108369319 CCTTTGCCAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 14 0.56
30 11 0.44
ACGTcount: A:0.00, C:0.07, G:0.15, T:0.78
Consensus pattern (30 bp):
TGTTTTTTTTTGTTTTTGCCTTTGCCTTTG
Found at i:108372136 original size:19 final size:20
Alignment explanation
Indices: 108372112--108372158 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
108372102 AGTGAAAGTT
108372112 TAATGCAAATGT-TGCAATG
1 TAATGCAAATGTATGCAATG
*
108372131 TAATGCAAATGTATGGAATG
1 TAATGCAAATGTATGCAATG
108372151 -AATGCAAA
1 TAATGCAAA
108372159 AGAAAGGAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 20 0.77
20 6 0.23
ACGTcount: A:0.43, C:0.09, G:0.21, T:0.28
Consensus pattern (20 bp):
TAATGCAAATGTATGCAATG
Found at i:108374718 original size:2 final size:2
Alignment explanation
Indices: 108374713--108374777 Score: 105
Period size: 2 Copynumber: 33.0 Consensus size: 2
108374703 AAAACAATAC
*
108374713 TA TA TA TA AA TA TA TA TA TA TA TA TA TA -A TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
108374754 AA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA
108374778 CATAAAAATA
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
1 1 0.02
2 57 0.98
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:108374800 original size:12 final size:12
Alignment explanation
Indices: 108374708--108374801 Score: 66
Period size: 12 Copynumber: 7.7 Consensus size: 12
108374698 AATAAAAAAC
*
108374708 AATACTATATATA
1 AATA-TATACATA
*
108374721 AATATATATATA
1 AATATATACATA
*
108374733 TATATATA-ATA
1 AATATATACATA
*
108374744 TATATATATAAATA
1 -A-ATATATACATA
* *
108374758 TATATATATATA
1 AATATATACATA
*
108374770 TATATATACATA
1 AATATATACATA
*
108374782 AAAATATACACT-
1 AATATATACA-TA
108374794 AATATATA
1 AATATATA
108374802 ATAGTAATAG
Statistics
Matches: 69, Mismatches: 8, Indels: 9
0.80 0.09 0.10
Matches are distributed among these distances:
11 3 0.04
12 51 0.74
13 12 0.17
14 3 0.04
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.40
Consensus pattern (12 bp):
AATATATACATA
Found at i:108375025 original size:3 final size:3
Alignment explanation
Indices: 108375012--108375097 Score: 63
Period size: 3 Copynumber: 28.3 Consensus size: 3
108375002 GAGGGCATAT
**
108375012 ATA AT- ATA ATA ATA AT- ATAA ATA ATA ATA TATA CATGA GGA ATA ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A ATA ATA ATA
* *
108375059 ATA ATA AT- ATAA ATA ATA GTA AAA ATA ATA A-A ATA ATA A
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA A
108375098 AACAAAGCTC
Statistics
Matches: 66, Mismatches: 9, Indels: 16
0.73 0.10 0.18
Matches are distributed among these distances:
2 8 0.12
3 48 0.73
4 9 0.14
5 1 0.02
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:108375036 original size:12 final size:12
Alignment explanation
Indices: 108375012--108375094 Score: 71
Period size: 12 Copynumber: 6.8 Consensus size: 12
108375002 GAGGGCATAT
108375012 ATAATAT-AATA
1 ATAATATAAATA
108375023 ATAATATAAATA
1 ATAATATAAATA
108375035 ATAATATATACATGA
1 ATAATATA-A-AT-A
**
108375050 GGAATA-ATAATA
1 ATAATATA-AATA
108375062 ATAATATAAATA
1 ATAATATAAATA
* *
108375074 ATAGTAAAAATA
1 ATAATATAAATA
*
108375086 ATAAAATAA
1 ATAATATAA
108375095 TAAAACAAAG
Statistics
Matches: 58, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
11 7 0.12
12 37 0.64
13 4 0.07
14 5 0.09
15 5 0.09
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.30
Consensus pattern (12 bp):
ATAATATAAATA
Found at i:108375085 original size:27 final size:27
Alignment explanation
Indices: 108375012--108375098 Score: 76
Period size: 27 Copynumber: 3.4 Consensus size: 27
108375002 GAGGGCATAT
* *
108375012 ATAATAT-AATAATAATATAAATAATA
1 ATAATATAAATAATAGTAAAAATAATA
* * * *
108375038 AT-ATATACAT--GAGGAATAATAATA
1 ATAATATAAATAATAGTAAAAATAATA
108375062 ATAATATAAATAATAGTAAAAATAATA
1 ATAATATAAATAATAGTAAAAATAATA
108375089 A-AATAATAAA
1 ATAAT-ATAAA
108375099 ACAAAGCTCT
Statistics
Matches: 46, Mismatches: 10, Indels: 9
0.71 0.15 0.14
Matches are distributed among these distances:
24 11 0.24
25 11 0.24
26 7 0.15
27 17 0.37
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.30
Consensus pattern (27 bp):
ATAATATAAATAATAGTAAAAATAATA
Found at i:108375452 original size:20 final size:20
Alignment explanation
Indices: 108375427--108375468 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 20
108375417 ACCTTCTTTC
108375427 CAAAAAAACAAAAAAACACCT
1 CAAAAAAACAAAAAAA-ACCT
108375448 CAAAAAAACAAAAAAAACCT
1 CAAAAAAACAAAAAAAACCT
108375468 C
1 C
108375469 CTCCAAAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.71, C:0.24, G:0.00, T:0.05
Consensus pattern (20 bp):
CAAAAAAACAAAAAAAACCT
Found at i:108375471 original size:23 final size:23
Alignment explanation
Indices: 108375427--108375507 Score: 71
Period size: 21 Copynumber: 3.6 Consensus size: 23
108375417 ACCTTCTTTC
*
108375427 CAAAAAAAC-AAAAAAA-CACCT
1 CAAAAAAACAAAAAAAACCTCCT
108375448 CAAAAAAACAAAAAAAACCTCCT
1 CAAAAAAACAAAAAAAACCTCCT
* *
108375471 C--CAAAACAAAGAACAATCCTCCT
1 CAAAAAAACAAA-AA-AAACCTCCT
* *
108375494 CCAAAAAACCAAAA
1 CAAAAAAACAAAAA
108375508 CCCCCCTAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
21 17 0.35
22 9 0.18
23 14 0.29
24 2 0.04
25 7 0.14
ACGTcount: A:0.63, C:0.28, G:0.01, T:0.07
Consensus pattern (23 bp):
CAAAAAAACAAAAAAAACCTCCT
Found at i:108385391 original size:16 final size:17
Alignment explanation
Indices: 108385361--108385393 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
108385351 TTCATAAGTA
108385361 TATATCAATTATTTCAT
1 TATATCAATTATTTCAT
108385378 TATATCAA-TATTTCAT
1 TATATCAATTATTTCAT
108385394 GCACCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.36, C:0.12, G:0.00, T:0.52
Consensus pattern (17 bp):
TATATCAATTATTTCAT
Found at i:108385948 original size:46 final size:46
Alignment explanation
Indices: 108385679--108385952 Score: 359
Period size: 46 Copynumber: 6.0 Consensus size: 46
108385669 TTTGACATGA
* * * ** ** *
108385679 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTTTGCCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
* * * *
108385725 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
* * *** *
108385771 TGCCATGGTATCTTTCAACCATGGTCTTATTCGTTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
*
108385817 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
*
108385863 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
*
108385909 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAG
108385953 AGAGCACACT
Statistics
Matches: 207, Mismatches: 21, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 207 1.00
ACGTcount: A:0.20, C:0.24, G:0.15, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
Found at i:108388898 original size:13 final size:13
Alignment explanation
Indices: 108388880--108388906 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
108388870 TATTTATTAA
108388880 TTTTCATATTTAC
1 TTTTCATATTTAC
108388893 TTTTCATATTTAC
1 TTTTCATATTTAC
108388906 T
1 T
108388907 CCAAACTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.15, G:0.00, T:0.63
Consensus pattern (13 bp):
TTTTCATATTTAC
Found at i:108391904 original size:54 final size:53
Alignment explanation
Indices: 108391844--108391953 Score: 150
Period size: 54 Copynumber: 2.1 Consensus size: 53
108391834 TTTGAATGAC
*
108391844 AAAGGGGTGCCGACCAT-GGGTTGTCCAAAACCCCCCAAAAAAAATTAATACAAA
1 AAAGGGGTGCCGACCATAAGG-TGTCCAAAA-CCCCCAAAAAAAATTAATACAAA
* * * *
108391898 AAAGGGGTGTCGACCATAAGGTGTCCAAAACCCTCAAAAAAATTTTATACAAA
1 AAAGGGGTGCCGACCATAAGGTGTCCAAAACCCCCAAAAAAAATTAATACAAA
108391951 AAA
1 AAA
108391954 TAGGTGTCGG
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
53 23 0.46
54 25 0.50
55 2 0.04
ACGTcount: A:0.45, C:0.21, G:0.17, T:0.17
Consensus pattern (53 bp):
AAAGGGGTGCCGACCATAAGGTGTCCAAAACCCCCAAAAAAAATTAATACAAA
Found at i:108391960 original size:53 final size:54
Alignment explanation
Indices: 108391865--108391967 Score: 145
Period size: 53 Copynumber: 1.9 Consensus size: 54
108391855 GACCATGGGT
*
108391865 TGTCCAAAACCCCCCAAAAAAAATTAATACAAAAAAGGGGTGTCGACCATAAGG
1 TGTCCAAAACCCCCCAAAAAAAATTAATACAAAAAAGAGGTGTCGACCATAAGG
* * * * *
108391919 TGTCCAAAA-CCCTCAAAAAAATTTTATACAAAAAATAGGTGTCGGCCAT
1 TGTCCAAAACCCCCCAAAAAAAATTAATACAAAAAAGAGGTGTCGACCAT
108391968 CTGTTTCAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
53 34 0.79
54 9 0.21
ACGTcount: A:0.45, C:0.21, G:0.15, T:0.19
Consensus pattern (54 bp):
TGTCCAAAACCCCCCAAAAAAAATTAATACAAAAAAGAGGTGTCGACCATAAGG
Found at i:108393501 original size:18 final size:18
Alignment explanation
Indices: 108393478--108393515 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
108393468 TGCAAATTTG
108393478 TTCTTAATTTGATCAATT
1 TTCTTAATTTGATCAATT
108393496 TTCTTAATTTGATCAATT
1 TTCTTAATTTGATCAATT
108393514 TT
1 TT
108393516 GTTTGAGTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.26, C:0.11, G:0.05, T:0.58
Consensus pattern (18 bp):
TTCTTAATTTGATCAATT
Found at i:108393747 original size:3 final size:3
Alignment explanation
Indices: 108393741--108393769 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
108393731 TTTTACAGTC
108393741 TCT TCT TCT TCT TCT TCT TCT TCT T-T TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
108393770 ATTATTAAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TCT
Found at i:108393946 original size:30 final size:31
Alignment explanation
Indices: 108393893--108393961 Score: 97
Period size: 30 Copynumber: 2.3 Consensus size: 31
108393883 ATTGTTAATC
*
108393893 AGTGATTGTTTTGTCACTTTTTTATAACGTT-
1 AGTGATTGTTTTGTCACTTTTTTA-AAAGTTG
*
108393924 AGTGATTGTTTTGTTA-TTTTTTAAAAGTTG
1 AGTGATTGTTTTGTCACTTTTTTAAAAGTTG
108393954 AGTGATTG
1 AGTGATTG
108393962 AAATAAAACC
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
29 5 0.14
30 15 0.43
31 15 0.43
ACGTcount: A:0.22, C:0.04, G:0.20, T:0.54
Consensus pattern (31 bp):
AGTGATTGTTTTGTCACTTTTTTAAAAGTTG
Found at i:108394283 original size:18 final size:18
Alignment explanation
Indices: 108394260--108394297 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
108394250 GTAGCATTTA
108394260 TGGCAAAATTAAAACTGG
1 TGGCAAAATTAAAACTGG
108394278 TGGCAAAATTAAAACTGG
1 TGGCAAAATTAAAACTGG
108394296 TG
1 TG
108394298 ATGTGTAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.42, C:0.11, G:0.24, T:0.24
Consensus pattern (18 bp):
TGGCAAAATTAAAACTGG
Found at i:108398040 original size:30 final size:29
Alignment explanation
Indices: 108397992--108398051 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
108397982 TCCTTAACTC
*
108397992 AAACTTTTGTAAAATTACAATTTTACCCCT
1 AAACTTTTGCAAAATTACAATTTT-CCCCT
* * *
108398022 AAACTTTTGCATATTTACACTTTTCCCCT
1 AAACTTTTGCAAAATTACAATTTTCCCCT
108398051 A
1 A
108398052 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 6 0.23
30 20 0.77
ACGTcount: A:0.32, C:0.23, G:0.03, T:0.42
Consensus pattern (29 bp):
AAACTTTTGCAAAATTACAATTTTCCCCT
Found at i:108404185 original size:18 final size:18
Alignment explanation
Indices: 108404160--108404207 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
108404150 TCTCCCTAAA
* *
108404160 TAAAAAAATATATCTTTTT
1 TAAAAAATTATA-ATTTTT
108404179 TAAAAAATTATAATTTTT
1 TAAAAAATTATAATTTTT
*
108404197 TACAAAATTAT
1 TAAAAAATTAT
108404208 TAAAATTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 15 0.58
19 11 0.42
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (18 bp):
TAAAAAATTATAATTTTT
Found at i:108404240 original size:18 final size:18
Alignment explanation
Indices: 108404178--108404242 Score: 67
Period size: 18 Copynumber: 3.4 Consensus size: 18
108404168 TATATCTTTT
* *
108404178 TTAAAAAATTATAATTTT
1 TTAAAAAATTAAAATTTA
108404196 TTACAAAATTATTAAAATTTA
1 TTA-AAAA--ATTAAAATTTA
* *
108404217 TAAAAAAATTAAAATTAA
1 TTAAAAAATTAAAATTTA
108404235 TTAAAAAA
1 TTAAAAAA
108404243 CCATTTAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
18 20 0.51
19 4 0.10
20 4 0.10
21 11 0.28
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (18 bp):
TTAAAAAATTAAAATTTA
Found at i:108407367 original size:18 final size:18
Alignment explanation
Indices: 108407344--108407380 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
108407334 AGTGCTTAAT
*
108407344 ATTTAATTTTTTTTGTTA
1 ATTTAATTTTTTTAGTTA
108407362 ATTTAATTTTTTTAGTTA
1 ATTTAATTTTTTTAGTTA
108407380 A
1 A
108407381 ATTTTATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (18 bp):
ATTTAATTTTTTTAGTTA
Found at i:108408484 original size:41 final size:41
Alignment explanation
Indices: 108408428--108408528 Score: 132
Period size: 41 Copynumber: 2.5 Consensus size: 41
108408418 AACGCGCAAT
*
108408428 AAGTAAAGTAATAGCGGCGTTTTTCTCATAAAAGCTGC-AA
1 AAGTAAAGCAATAGCGGCGTTTTTCTCATAAAAGCTGCTAA
* * * *
108408468 AAGGTAAAGCAGTAGCGGTGTTTTTCTCATAAACGTTGCTAA
1 AA-GTAAAGCAATAGCGGCGTTTTTCTCATAAAAGCTGCTAA
*
108408510 AAGTAAAGCAATATCGGCG
1 AAGTAAAGCAATAGCGGCG
108408529 CAAAATATCT
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
40 2 0.04
41 45 0.88
42 4 0.08
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.27
Consensus pattern (41 bp):
AAGTAAAGCAATAGCGGCGTTTTTCTCATAAAAGCTGCTAA
Found at i:108408652 original size:21 final size:21
Alignment explanation
Indices: 108408628--108408671 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
108408618 CCCAAAATAA
*
108408628 TTTCCCCAAATCCCTTAGTTT
1 TTTCCCCAAATCCCTTAGATT
108408649 TTTCCCCAAATCCCTTAGATT
1 TTTCCCCAAATCCCTTAGATT
108408670 TT
1 TT
108408672 CCTTGAATGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.20, C:0.32, G:0.05, T:0.43
Consensus pattern (21 bp):
TTTCCCCAAATCCCTTAGATT
Found at i:108408741 original size:25 final size:25
Alignment explanation
Indices: 108408685--108408771 Score: 86
Period size: 25 Copynumber: 3.5 Consensus size: 25
108408675 TGAATGTCTA
* * *
108408685 CTACATCGCCGTCAATAGTCCTCTC
1 CTACATCGTCGTCGATAGTCCTCTG
* *
108408710 CAACATCGTCGTTGATAGTCCTCTG
1 CTACATCGTCGTCGATAGTCCTCTG
* *
108408735 CTGCATC-ACTGTCGATAGTCCTCTG
1 CTACATCGTC-GTCGATAGTCCTCTG
*
108408760 CTCCATCGTCGT
1 CTACATCGTCGT
108408772 GTACGTTTTT
Statistics
Matches: 49, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
24 1 0.02
25 47 0.96
26 1 0.02
ACGTcount: A:0.17, C:0.34, G:0.17, T:0.31
Consensus pattern (25 bp):
CTACATCGTCGTCGATAGTCCTCTG
Found at i:108410718 original size:39 final size:39
Alignment explanation
Indices: 108410674--108410816 Score: 214
Period size: 39 Copynumber: 3.7 Consensus size: 39
108410664 TCATATTTAA
* * *
108410674 TCAGTAACAATCAGTTATTCAGTACAGTAATTTAGTCAT
1 TCAGTAACTATCAATTATTCAGTACAGTAATTTAGTTAT
* * *
108410713 TCAGTAACTATCAAATATTCAGTGCAGTAGTTTAGTTAT
1 TCAGTAACTATCAATTATTCAGTACAGTAATTTAGTTAT
* *
108410752 TCAATAACTATCAATTATTCAATACAGTAATTTAGTTAT
1 TCAGTAACTATCAATTATTCAGTACAGTAATTTAGTTAT
108410791 TCAGTAACTATCAATTATTCAGTACA
1 TCAGTAACTATCAATTATTCAGTACA
108410817 ATAGTTTACC
Statistics
Matches: 91, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 91 1.00
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (39 bp):
TCAGTAACTATCAATTATTCAGTACAGTAATTTAGTTAT
Found at i:108410771 original size:18 final size:18
Alignment explanation
Indices: 108410748--108410811 Score: 65
Period size: 18 Copynumber: 3.4 Consensus size: 18
108410738 AGTAGTTTAG
108410748 TTATTCAATAACTATCAA
1 TTATTCAATAACTATCAA
* * *
108410766 TTATTCAATACAGTAATTTAG
1 TTATTCAATA-ACT-A-TCAA
*
108410787 TTATTCAGTAACTATCAA
1 TTATTCAATAACTATCAA
108410805 TTATTCA
1 TTATTCA
108410812 GTACAATAGT
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
18 19 0.53
19 3 0.08
20 3 0.08
21 11 0.31
ACGTcount: A:0.39, C:0.14, G:0.05, T:0.42
Consensus pattern (18 bp):
TTATTCAATAACTATCAA
Found at i:108410812 original size:18 final size:18
Alignment explanation
Indices: 108410711--108410814 Score: 64
Period size: 18 Copynumber: 5.4 Consensus size: 18
108410701 TAATTTAGTC
*
108410711 ATTCAGTAACTATCAAAT
1 ATTCAGTAACTATCAATT
* * * *
108410729 ATTCAGTGCAGTAGTTTAGTT
1 ATTCAGT-AACTA--TCAATT
*
108410750 ATTCAATAACTATCAATT
1 ATTCAGTAACTATCAATT
* * * *
108410768 ATTCAATACAGTAATTTAGTT
1 ATTCAGTA-ACT-A-TCAATT
108410789 ATTCAGTAACTATCAATT
1 ATTCAGTAACTATCAATT
108410807 ATTCAGTA
1 ATTCAGTA
108410815 CAATAGTTTA
Statistics
Matches: 63, Mismatches: 17, Indels: 12
0.68 0.18 0.13
Matches are distributed among these distances:
18 31 0.49
19 6 0.10
20 6 0.10
21 20 0.32
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.39
Consensus pattern (18 bp):
ATTCAGTAACTATCAATT
Found at i:108412032 original size:30 final size:28
Alignment explanation
Indices: 108411979--108412040 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 28
108411969 ATTATTTAAT
108411979 TAATAAATATCTTTTACTTAATAATAAA
1 TAATAAATATCTTTTACTTAATAATAAA
*
108412007 TAATAAATATCTATTTACTTTAATAATAAG
1 TAATAAATATCT-TTTAC-TTAATAATAAA
108412037 TAAT
1 TAAT
108412041 TTAAATCCAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 12 0.39
29 5 0.16
30 14 0.45
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (28 bp):
TAATAAATATCTTTTACTTAATAATAAA
Found at i:108414388 original size:14 final size:13
Alignment explanation
Indices: 108414362--108414403 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
108414352 AAACCCTAAA
*
108414362 TTTTCTCCTTTCT
1 TTTTCTTCTTTCT
108414375 TTTTCTTTCTTTCT
1 TTTTC-TTCTTTCT
108414389 TTTTCTTCTTTCT
1 TTTTCTTCTTTCT
108414402 TT
1 TT
108414404 CCCCTGTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
13 15 0.56
14 12 0.44
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTCTTCTTTCT
Found at i:108414626 original size:5 final size:5
Alignment explanation
Indices: 108414618--108414649 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
108414608 ATACTTTAAT
*
108414618 TATAA TATAA TATAG TATAA TATAA TATAA TA
1 TATAA TATAA TATAA TATAA TATAA TATAA TA
108414650 ATATTTTCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:108424577 original size:29 final size:29
Alignment explanation
Indices: 108424544--108424704 Score: 182
Period size: 29 Copynumber: 5.6 Consensus size: 29
108424534 GTGACGAGAT
108424544 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
108424573 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
108424602 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* ** * * ***
108424631 CGGCACTGGGTGTGCGAGCTCGAAGGCTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * *
108424660 TGGCACTATGTGTGCGGGCT-TAAATCGA-A
1 TGGCACTAAGTGTGCGTGCTGGAAAT--ATA
108424689 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
108424705 AAATCGAGTA
Statistics
Matches: 111, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
28 2 0.02
29 109 0.98
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:108431785 original size:29 final size:29
Alignment explanation
Indices: 108431752--108431854 Score: 170
Period size: 29 Copynumber: 3.6 Consensus size: 29
108431742 GTGACGAGAT
108431752 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
108431781 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
108431810 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* **
108431839 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
108431855 AGCTCGAAGC
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 69 1.00
ACGTcount: A:0.25, C:0.16, G:0.33, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:108435697 original size:47 final size:46
Alignment explanation
Indices: 108435578--108435802 Score: 173
Period size: 47 Copynumber: 4.8 Consensus size: 46
108435568 TCCTTTGTGC
* *
108435578 GCTAGTGTAATA-CATGTCTGGGACAT-GCATCGACCACATT-ATGA-GA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCG---GCATTGA-GATGA
* *
108435624 GCTAGTGTAAGACCATGTTTGAGACATGGCATCGGCATTGAGACTAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGA-T-GA
** *
108435672 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-TACAAGATGT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT-TGAGATGA
* *
108435716 G-TCAGTATATAGACCATGCCTGGGACATGGCATC-G-ATTTGATGGATGA
1 GCT-AGTGTA-AGACCATGTCTGGGACATGGCATCGGCA-TTGA--GATGA
* *
108435764 GCTAGTGTAAGACCATGTCTGGGACATGGTATTGGCATT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATT
108435803 ATACCCTTTG
Statistics
Matches: 143, Mismatches: 18, Indels: 34
0.73 0.09 0.17
Matches are distributed among these distances:
43 1 0.01
44 7 0.05
45 11 0.08
46 38 0.27
47 51 0.36
48 33 0.23
49 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.27
Consensus pattern (46 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGATGA
Found at i:108436834 original size:28 final size:28
Alignment explanation
Indices: 108436793--108436858 Score: 114
Period size: 28 Copynumber: 2.4 Consensus size: 28
108436783 ATACGGCCGA
* *
108436793 GGACACGGGTGTGTCGTGGTCATGTGAG
1 GGACACGGGCGTGTCATGGTCATGTGAG
108436821 GGACACGGGCGTGTCATGGTCATGTGAG
1 GGACACGGGCGTGTCATGGTCATGTGAG
108436849 GGACACGGGC
1 GGACACGGGC
108436859 CATAGACAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.17, C:0.18, G:0.45, T:0.20
Consensus pattern (28 bp):
GGACACGGGCGTGTCATGGTCATGTGAG
Found at i:108438769 original size:39 final size:39
Alignment explanation
Indices: 108438699--108438861 Score: 200
Period size: 39 Copynumber: 3.9 Consensus size: 39
108438689 GAAAAAAAAA
*
108438699 ATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTACT
1 ATAACCGGGTTAAGT-CCGAAGGCATTCGTGCGGGTTATT
108438739 ATAACCGGGTTAAGTCCGAAGGCATTCGTGCGGGTTATT
1 ATAACCGGGTTAAGTCCGAAGGCATTCGTGCGGGTTATT
108438778 ATAACCGAAGGCTTCGAAGTAAGTCCGAAGGCATTCGTGCGGGTTATT
1 ATAACCG--GG--T-----TAAGTCCGAAGGCATTCGTGCGGGTTATT
* * *
108438826 ATAACCGGGTTAAGTCCCAAGGCATTTGTGCTGGTT
1 ATAACCGGGTTAAGTCCGAAGGCATTCGTGCGGGTT
108438862 GTTACATCCG
Statistics
Matches: 110, Mismatches: 4, Indels: 19
0.83 0.03 0.14
Matches are distributed among these distances:
39 53 0.48
40 15 0.14
41 2 0.02
43 1 0.01
44 1 0.01
46 2 0.02
48 36 0.33
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (39 bp):
ATAACCGGGTTAAGTCCGAAGGCATTCGTGCGGGTTATT
Found at i:108446682 original size:40 final size:40
Alignment explanation
Indices: 108446620--108446777 Score: 244
Period size: 40 Copynumber: 4.0 Consensus size: 40
108446610 GGAGAAAAAA
* *
108446620 TATAATCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAC
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
* *
108446660 TATAACCGGGTTAAATCTCGAAGGCATTCGTGCGGGTTAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
* *
108446700 TATAACCGGGTTAAGTCCCGAAGGCATTCATACGGGTTAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
* *
108446740 TATAACCGGGTTAAGTCCCGAAGGCATTTGTGCTGGTT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTT
108446778 GTTACATTCG
Statistics
Matches: 106, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 106 1.00
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (40 bp):
TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
Found at i:108446801 original size:80 final size:80
Alignment explanation
Indices: 108446635--108446803 Score: 194
Period size: 80 Copynumber: 2.1 Consensus size: 80
108446625 TCGGGTTAAG
* * *
108446635 TCCCGAAGGCATTCGTGCGGGTTACTATAACCGGGTTAAATCTCGAAGGCATTCGTGCGGGTTAT
1 TCCCGAAGGCATTCATACGGGTTACTATAACCGGGTTAAATCCCGAAGGCATTCGTGCGGGTTAT
* * ** *
108446700 TATAACCGGGTTAAG
66 TACAACCGAGCCAAA
* * * * *
108446715 TCCCGAAGGCATTCATACGGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTTGTGCTGGTTGT
1 TCCCGAAGGCATTCATACGGGTTACTATAACCGGGTTAAATCCCGAAGGCATTCGTGCGGGTTAT
**
108446780 TACATTCGAGCCAAA
66 TACAACCGAGCCAAA
*
108446795 TTCCGAAGG
1 TCCCGAAGG
108446804 TATTTATGTT
Statistics
Matches: 73, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
80 73 1.00
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (80 bp):
TCCCGAAGGCATTCATACGGGTTACTATAACCGGGTTAAATCCCGAAGGCATTCGTGCGGGTTAT
TACAACCGAGCCAAA
Found at i:108453131 original size:24 final size:24
Alignment explanation
Indices: 108453097--108453144 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
108453087 AAGGGGGAGA
108453097 ATTGCAACAGCTCGATTTTGGGCT
1 ATTGCAACAGCTCGATTTTGGGCT
*
108453121 ATTGCAGCAGCTCGATTTTGGGCT
1 ATTGCAACAGCTCGATTTTGGGCT
108453145 TAGTTAGGTC
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:0.19, C:0.21, G:0.27, T:0.33
Consensus pattern (24 bp):
ATTGCAACAGCTCGATTTTGGGCT
Found at i:108454430 original size:46 final size:46
Alignment explanation
Indices: 108454332--108454494 Score: 161
Period size: 46 Copynumber: 3.5 Consensus size: 46
108454322 TTTAAGAGCT
* * * * * *
108454332 AGTGTAAAACCATGTCTGGGACATGGCATCGACATTGAGATGAAAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GTATCGACCTCGAGATGTAAGCC
*
108454380 AGTGTATGACATGTCTGGGACATGTATCGACCTCGAGATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGTATCGACCTCGAGATGTAAGCC
* * *
108454426 AGTGTAAGACATGTTTGGGACATGTATC-AGCTACGAGATGT--GTC
1 AGTGTAAGACATGTCTGGGACATGTATCGACCT-CGAGATGTAAGCC
* *
108454470 AGTATAAGACCATGCCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
108454495 GCATCGGCAC
Statistics
Matches: 99, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
44 10 0.10
45 16 0.16
46 52 0.53
47 14 0.14
48 7 0.07
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGTATCGACCTCGAGATGTAAGCC
Found at i:108458877 original size:21 final size:21
Alignment explanation
Indices: 108458851--108458896 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
108458841 CTCTCCACAT
108458851 GTGTGTGGCCTTCACACAGGC
1 GTGTGTGGCCTTCACACAGGC
**
108458872 GTGTGTGGCCTTCACATGGGC
1 GTGTGTGGCCTTCACACAGGC
108458893 GTGT
1 GTGT
108458897 AGACCCCCAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.11, C:0.24, G:0.37, T:0.28
Consensus pattern (21 bp):
GTGTGTGGCCTTCACACAGGC
Found at i:108458896 original size:19 final size:19
Alignment explanation
Indices: 108458824--108458896 Score: 60
Period size: 21 Copynumber: 3.7 Consensus size: 19
108458814 CACGAGCTGC
*
108458824 TCACATGGGCGTGTGCCCT
1 TCACATGGGCGTGTGGCCT
*
108458843 CTCCACAT--GTGTGTGGCCT
1 -T-CACATGGGCGTGTGGCCT
* *
108458862 TCACACAGGCGTGTGTGGCCT
1 TCACA-TGG-GCGTGTGGCCT
108458883 TCACATGGGCGTGT
1 TCACATGGGCGTGT
108458897 AGACCCCCAC
Statistics
Matches: 43, Mismatches: 5, Indels: 11
0.73 0.08 0.19
Matches are distributed among these distances:
17 4 0.09
18 1 0.02
19 14 0.33
20 3 0.07
21 21 0.49
ACGTcount: A:0.12, C:0.29, G:0.32, T:0.27
Consensus pattern (19 bp):
TCACATGGGCGTGTGGCCT
Found at i:108466594 original size:25 final size:25
Alignment explanation
Indices: 108466566--108466637 Score: 117
Period size: 25 Copynumber: 2.9 Consensus size: 25
108466556 CAACTTATAC
*
108466566 CTTCTCAACTTCTTCAATTTCTATT
1 CTTCTAAACTTCTTCAATTTCTATT
*
108466591 CTTCTGAACTTCTTCAATTTCTATT
1 CTTCTAAACTTCTTCAATTTCTATT
*
108466616 CTTCTAAACTTCTCCAATTTCT
1 CTTCTAAACTTCTTCAATTTCT
108466638 CTTGCTGTAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.21, C:0.28, G:0.01, T:0.50
Consensus pattern (25 bp):
CTTCTAAACTTCTTCAATTTCTATT
Found at i:108475505 original size:22 final size:20
Alignment explanation
Indices: 108475487--108475524 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
108475477 TATATTTTGA
108475487 CAAAAAAAAATTTGAATTTT
1 CAAAAAAAAATTTGAATTTT
* *
108475507 TAAAAAGAAATTTGAATT
1 CAAAAAAAAATTTGAATT
108475525 GAAATTTAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.55, C:0.03, G:0.08, T:0.34
Consensus pattern (20 bp):
CAAAAAAAAATTTGAATTTT
Found at i:108477504 original size:2 final size:2
Alignment explanation
Indices: 108477497--108477550 Score: 92
Period size: 2 Copynumber: 27.5 Consensus size: 2
108477487 AGCTTATCTT
108477497 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
108477539 TA TC T- TA TA TA T
1 TA TA TA TA TA TA T
108477551 TTTAATTTCA
Statistics
Matches: 50, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
1 1 0.02
2 49 0.98
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:108478018 original size:4 final size:4
Alignment explanation
Indices: 108477992--108478098 Score: 56
Period size: 4 Copynumber: 24.8 Consensus size: 4
108477982 TTAAAAAAAT
* * *
108477992 TAAA TGAA T-AA TAAA TGAA TAAA TAAAA CAAA TATACA TAACA TTAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA T-AAA TAAA TA-A-A TAA-A -TAAA
* * *
108478040 TTCAAA TAAA TGAA CAAA TAAA TAAA CAAA TATAA TAGATA TAAA T-AA
1 -T-AAA TAAA TAAA TAAA TAAA TAAA TAAA TA-AA TA-A-A TAAA TAAA
108478088 TAAA TAAA TAA
1 TAAA TAAA TAA
108478099 GTATTAGGTA
Statistics
Matches: 82, Mismatches: 12, Indels: 18
0.73 0.11 0.16
Matches are distributed among these distances:
3 6 0.07
4 47 0.57
5 17 0.21
6 12 0.15
ACGTcount: A:0.65, C:0.06, G:0.04, T:0.25
Consensus pattern (4 bp):
TAAA
Found at i:108478987 original size:19 final size:19
Alignment explanation
Indices: 108478958--108479004 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
108478948 TTTTCTTTTT
*
108478958 TAAAA-AAAAGCTAGTAAAA
1 TAAAATAAAAGC-AGAAAAA
108478977 -AAAATAAAAGCAGAAAAA
1 TAAAATAAAAGCAGAAAAA
108478995 TAAAATAAAA
1 TAAAATAAAA
108479005 ATAAAACAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 10 0.40
19 15 0.60
ACGTcount: A:0.74, C:0.04, G:0.09, T:0.13
Consensus pattern (19 bp):
TAAAATAAAAGCAGAAAAA
Found at i:108479446 original size:24 final size:23
Alignment explanation
Indices: 108479407--108479451 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
108479397 GGGTTGTTTG
108479407 GTTTTTTTTTTATTTGGGCTTAT
1 GTTTTTTTTTTATTTGGGCTTAT
108479430 GTTTTTTGTTGTT-TTTGGGCTT
1 GTTTTTT-TT-TTATTTGGGCTT
108479452 GTAATGGACT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 7 0.35
24 11 0.55
25 2 0.10
ACGTcount: A:0.04, C:0.04, G:0.22, T:0.69
Consensus pattern (23 bp):
GTTTTTTTTTTATTTGGGCTTAT
Found at i:108486180 original size:23 final size:25
Alignment explanation
Indices: 108486143--108486189 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 25
108486133 ATGTAAATAG
108486143 TATATATATTATTTATA-TATTATC
1 TATATATATTATTTATATTATTATC
*
108486167 TATA-ATATTGTTTATATTATTAT
1 TATATATATTATTTATATTATTAT
108486190 ATATTTTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (25 bp):
TATATATATTATTTATATTATTATC
Found at i:108486184 original size:21 final size:21
Alignment explanation
Indices: 108486143--108486238 Score: 76
Period size: 21 Copynumber: 4.5 Consensus size: 21
108486133 ATGTAAATAG
*
108486143 TATATATATTATTTATA-TAT
1 TATATATATTGTTTATATTAT
108486163 TATCTATAATATTGTTTATATTAT
1 TA--TAT-ATATTGTTTATATTAT
*
108486187 TATATATTTTGTTTATAAATT-T
1 TATATATATTGTTTAT--ATTAT
108486209 TAT-TATA-TGTTATATATT-T
1 TATATATATTGTT-TATATTAT
108486228 TACTATATATT
1 TA-TATATATT
108486239 ATTCCTTATA
Statistics
Matches: 63, Mismatches: 3, Indels: 18
0.75 0.04 0.21
Matches are distributed among these distances:
19 6 0.10
20 7 0.11
21 20 0.32
22 11 0.17
23 14 0.22
24 5 0.08
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.60
Consensus pattern (21 bp):
TATATATATTGTTTATATTAT
Found at i:108486193 original size:44 final size:41
Alignment explanation
Indices: 108486143--108486241 Score: 110
Period size: 42 Copynumber: 2.3 Consensus size: 41
108486133 ATGTAAATAG
*
108486143 TATATATATTATTTATATATTATCTATAATATTGTT-TATATTAT
1 TATATATATTATTTATAAATT-T-TATAATA-TGTTATATATT-T
* * *
108486187 TATATATTTTGTTTATAAATTTTATTATATGTTATATATTT
1 TATATATATTATTTATAAATTTTATAATATGTTATATATTT
108486228 TACTATATATTATT
1 TA-TATATATTATT
108486242 CCTTATATTA
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
41 7 0.15
42 21 0.45
43 1 0.02
44 18 0.38
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (41 bp):
TATATATATTATTTATAAATTTTATAATATGTTATATATTT
Found at i:108486227 original size:19 final size:19
Alignment explanation
Indices: 108486199--108486240 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
108486189 TATATTTTGT
* *
108486199 TTATAAATTTTATTATATG
1 TTATAAATTTTACTATATA
*
108486218 TTATATATTTTACTATATA
1 TTATAAATTTTACTATATA
108486237 TTAT
1 TTAT
108486241 TCCTTATATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (19 bp):
TTATAAATTTTACTATATA
Found at i:108486474 original size:15 final size:17
Alignment explanation
Indices: 108486454--108486489 Score: 58
Period size: 15 Copynumber: 2.2 Consensus size: 17
108486444 AATTTGTTTA
108486454 TTTATTTTT-GTATT-T
1 TTTATTTTTAGTATTGT
108486469 TTTATTTTTAGTATTGT
1 TTTATTTTTAGTATTGT
108486486 TTTA
1 TTTA
108486490 GTATGTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 9 0.47
16 5 0.26
17 5 0.26
ACGTcount: A:0.17, C:0.00, G:0.08, T:0.75
Consensus pattern (17 bp):
TTTATTTTTAGTATTGT
Found at i:108488030 original size:53 final size:53
Alignment explanation
Indices: 108487950--108488057 Score: 216
Period size: 53 Copynumber: 2.0 Consensus size: 53
108487940 GTAATGAGGA
108487950 ATGAATATCTTGATAAAGTGGAGGACAACGTTTCTGTCTATGCATGGTCAGAG
1 ATGAATATCTTGATAAAGTGGAGGACAACGTTTCTGTCTATGCATGGTCAGAG
108488003 ATGAATATCTTGATAAAGTGGAGGACAACGTTTCTGTCTATGCATGGTCAGAG
1 ATGAATATCTTGATAAAGTGGAGGACAACGTTTCTGTCTATGCATGGTCAGAG
108488056 AT
1 AT
108488058 AACCCAGTTA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 55 1.00
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.31
Consensus pattern (53 bp):
ATGAATATCTTGATAAAGTGGAGGACAACGTTTCTGTCTATGCATGGTCAGAG
Found at i:108497814 original size:23 final size:23
Alignment explanation
Indices: 108497785--108497833 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
108497775 AAATAATGAT
108497785 TGATGAACTAAATATTTTACAAA
1 TGATGAACTAAATATTTTACAAA
108497808 TGATGAACTAAATATTTTACAAA
1 TGATGAACTAAATATTTTACAAA
108497831 TGA
1 TGA
108497834 AGTTTTGCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.47, C:0.08, G:0.10, T:0.35
Consensus pattern (23 bp):
TGATGAACTAAATATTTTACAAA
Found at i:108498400 original size:45 final size:45
Alignment explanation
Indices: 108498277--108498428 Score: 159
Period size: 45 Copynumber: 3.4 Consensus size: 45
108498267 GCACCAATAG
108498277 TAGATTTGGCGTCTCTGTATTAGATAGAGAGCAGATCAAAGAT-A
1 TAGATTTGGCGTCTCTGTATTAGATAGAGAGCAGATCAAAGATGA
* * * * * * * * *
108498321 GCAGATCTAGCAT-TCGTGTGTTTACATCGA-AGCAGATCGAGGATGA
1 -TAGATTTGGCGTCTC-TGT-ATTAGATAGAGAGCAGATCAAAGATGA
*
108498367 TAGATTTGGCGTCTCTGTATTAGATAGAGAGCAGATCAAAGAAGA
1 TAGATTTGGCGTCTCTGTATTAGATAGAGAGCAGATCAAAGATGA
108498412 -AGATTTGGCGTCTCTGT
1 TAGATTTGGCGTCTCTGT
108498429 GTTGACGGAT
Statistics
Matches: 83, Mismatches: 19, Indels: 11
0.73 0.17 0.10
Matches are distributed among these distances:
44 26 0.31
45 47 0.57
46 10 0.12
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (45 bp):
TAGATTTGGCGTCTCTGTATTAGATAGAGAGCAGATCAAAGATGA
Found at i:108498419 original size:44 final size:44
Alignment explanation
Indices: 108498278--108498522 Score: 183
Period size: 44 Copynumber: 5.5 Consensus size: 44
108498268 CACCAATAGT
* *
108498278 AGATTTGGCGTCTCTGTATTAGATAGAGAGCAGATCAAAGATAGC
1 AGATTTGGCGTCTCTGTATTAGATAGAGAGCAGATCGAAGA-AGA
* * * * * * * *
108498323 AGATCTAGCAT-TCGTGTGTTTACATCGA-AGCAGATCGAGGATGA
1 AGATTTGGCGTCTC-TGT-ATTAGATAGAGAGCAGATCGAAGAAGA
*
108498367 TAGATTTGGCGTCTCTGTATTAGATAGAGAGCAGATCAAAGAAGA
1 -AGATTTGGCGTCTCTGTATTAGATAGAGAGCAGATCGAAGAAGA
* ** * *
108498412 AGATTTGGCGTCTCTGTGTT-GACGGATAGCAGATCGAAGAAAGC
1 AGATTTGGCGTCTCTGTATTAGATAGAGAGCAGATCGAAG-AAGA
* * * ** *
108498456 ACATCTAGTATCTCTGTATT-GACAGAGAGCAGATCGAAGATAGCA
1 AGATTTGGCGTCTCTGTATTAGATAGAGAGCAGATCGAAGA-AG-A
* *
108498501 TGATTTGGTGTCTCTGTATTAG
1 AGATTTGGCGTCTCTGTATTAG
108498523 GCGATATGCA
Statistics
Matches: 152, Mismatches: 39, Indels: 17
0.73 0.19 0.08
Matches are distributed among these distances:
43 16 0.11
44 65 0.43
45 61 0.40
46 10 0.07
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (44 bp):
AGATTTGGCGTCTCTGTATTAGATAGAGAGCAGATCGAAGAAGA
Found at i:108498506 original size:133 final size:133
Alignment explanation
Indices: 108498278--108498522 Score: 309
Period size: 133 Copynumber: 1.8 Consensus size: 133
108498268 CACCAATAGT
* * * *
108498278 AGATTTGGCGTCTCTGTATTAGATAGAGAGCAGATCAAAGATAGCAGATCTAGCATTCGTGTGTT
1 AGATTTGGCGTCTCTGTATTAGACAGAGAGCAGATCAAAGAAAGCACATCTAGCATTCGTGTATT
* *
108498343 TACATCGAAGCAGATCGAGGATGATAGATTTGGCGTCTCTGTATTAGATAGAGAGCAGATCAAAG
66 GACA-CGAAGCAGATCGAAGATGATAGATTTGGCGTCTCTGTATTAGATAGAGAGCAGATCAAAG
108498408 AAGA
130 AAGA
* * * * *
108498412 AGATTTGGCGTCTCTGTGTT-GACGGATAGCAGATCGAAGAAAGCACATCTAGTATCTC-TGTAT
1 AGATTTGGCGTCTCTGTATTAGACAGAGAGCAGATCAAAGAAAGCACATCTAGCAT-TCGTGTAT
*
108498475 TGACA-GAGAGCAGATCGAAGATAGCAT-GATTTGGTGTCTCTGTATTAG
65 TGACACGA-AGCAGATCGAAGAT-G-ATAGATTTGGCGTCTCTGTATTAG
108498523 GCGATATGCA
Statistics
Matches: 95, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
131 2 0.02
132 13 0.14
133 57 0.60
134 23 0.24
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (133 bp):
AGATTTGGCGTCTCTGTATTAGACAGAGAGCAGATCAAAGAAAGCACATCTAGCATTCGTGTATT
GACACGAAGCAGATCGAAGATGATAGATTTGGCGTCTCTGTATTAGATAGAGAGCAGATCAAAGA
AGA
Found at i:108500019 original size:23 final size:25
Alignment explanation
Indices: 108499988--108500034 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 25
108499978 ATGTAAATAG
108499988 TATATATATTATTTATA-TATTATC
1 TATATATATTATTTATATTATTATC
*
108500012 TATA-ATATTGTTTATATTATTAT
1 TATATATATTATTTATATTATTAT
108500035 ATATTTTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (25 bp):
TATATATATTATTTATATTATTATC
Found at i:108500029 original size:21 final size:21
Alignment explanation
Indices: 108499988--108500083 Score: 76
Period size: 21 Copynumber: 4.5 Consensus size: 21
108499978 ATGTAAATAG
*
108499988 TATATATATTATTTATA-TAT
1 TATATATATTGTTTATATTAT
108500008 TATCTATAATATTGTTTATATTAT
1 TA--TAT-ATATTGTTTATATTAT
*
108500032 TATATATTTTGTTTATAAATT-T
1 TATATATATTGTTTAT--ATTAT
108500054 TAT-TATA-TGTTATATATT-T
1 TATATATATTGTT-TATATTAT
108500073 TACTATATATT
1 TA-TATATATT
108500084 ATTCCTTACA
Statistics
Matches: 63, Mismatches: 3, Indels: 18
0.75 0.04 0.21
Matches are distributed among these distances:
19 6 0.10
20 7 0.11
21 20 0.32
22 11 0.17
23 14 0.22
24 5 0.08
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.60
Consensus pattern (21 bp):
TATATATATTGTTTATATTAT
Found at i:108500047 original size:44 final size:41
Alignment explanation
Indices: 108499988--108500086 Score: 110
Period size: 42 Copynumber: 2.3 Consensus size: 41
108499978 ATGTAAATAG
*
108499988 TATATATATTATTTATATATTATCTATAATATTGTT-TATATTAT
1 TATATATATTATTTATAAATT-T-TATAATA-TGTTATATATT-T
* * *
108500032 TATATATTTTGTTTATAAATTTTATTATATGTTATATATTT
1 TATATATATTATTTATAAATTTTATAATATGTTATATATTT
108500073 TACTATATATTATT
1 TA-TATATATTATT
108500087 CCTTACATTA
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
41 7 0.15
42 21 0.45
43 1 0.02
44 18 0.38
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (41 bp):
TATATATATTATTTATAAATTTTATAATATGTTATATATTT
Found at i:108500072 original size:19 final size:19
Alignment explanation
Indices: 108500044--108500085 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
108500034 TATATTTTGT
* *
108500044 TTATAAATTTTATTATATG
1 TTATAAATTTTACTATATA
*
108500063 TTATATATTTTACTATATA
1 TTATAAATTTTACTATATA
108500082 TTAT
1 TTAT
108500086 TCCTTACATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (19 bp):
TTATAAATTTTACTATATA
Found at i:108500318 original size:15 final size:17
Alignment explanation
Indices: 108500298--108500333 Score: 58
Period size: 15 Copynumber: 2.2 Consensus size: 17
108500288 AATTTGTTTA
108500298 TTTATTTTT-GTATT-T
1 TTTATTTTTAGTATTGT
108500313 TTTATTTTTAGTATTGT
1 TTTATTTTTAGTATTGT
108500330 TTTA
1 TTTA
108500334 ATATGTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 9 0.47
16 5 0.26
17 5 0.26
ACGTcount: A:0.17, C:0.00, G:0.08, T:0.75
Consensus pattern (17 bp):
TTTATTTTTAGTATTGT
Found at i:108500375 original size:15 final size:15
Alignment explanation
Indices: 108500298--108500378 Score: 56
Period size: 15 Copynumber: 5.1 Consensus size: 15
108500288 AATTTGTTTA
*
108500298 TTTATTTTTGTATTT
1 TTTATTTTTATATTT
108500313 TTTATTTTTAGTATTGT
1 TTTATTTTTA-TATT-T
* *
108500330 TTTAATATGTTAAATTT
1 TTT-AT-TTTTATATTT
* **
108500347 TTT-TATAAATTATTT
1 TTTATTTTTA-TATTT
108500362 TTTATTTTTATATTT
1 TTTATTTTTATATTT
108500377 TT
1 TT
108500379 ATATAGTCGC
Statistics
Matches: 49, Mismatches: 11, Indels: 12
0.68 0.15 0.17
Matches are distributed among these distances:
14 1 0.02
15 24 0.49
16 7 0.14
17 8 0.16
18 5 0.10
19 4 0.08
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (15 bp):
TTTATTTTTATATTT
Found at i:108503219 original size:21 final size:21
Alignment explanation
Indices: 108503176--108503219 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
108503166 TACACTATAT
* ** *
108503176 TTTATATTTTTTTACTTAGAG
1 TTTAAATTTTTTTACAAAAAG
108503197 TTTAAATTTTTTTACAAAAAG
1 TTTAAATTTTTTTACAAAAAG
108503218 TT
1 TT
108503220 AACATTTGTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.05, G:0.07, T:0.57
Consensus pattern (21 bp):
TTTAAATTTTTTTACAAAAAG
Found at i:108503313 original size:14 final size:15
Alignment explanation
Indices: 108503296--108503324 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
108503286 GAGTATGGTA
108503296 AAATA-TTAAAAAAT
1 AAATATTTAAAAAAT
108503310 AAATATTTAAAAAAT
1 AAATATTTAAAAAAT
108503325 TACTAATAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AAATATTTAAAAAAT
Found at i:108505405 original size:9 final size:9
Alignment explanation
Indices: 108505391--108505421 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
108505381 AAAATTTTAT
108505391 TCAAGTAAC
1 TCAAGTAAC
108505400 TCAAGTAAC
1 TCAAGTAAC
*
108505409 TCAAATAAC
1 TCAAGTAAC
108505418 TCAA
1 TCAA
108505422 ATAAGTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.48, C:0.23, G:0.06, T:0.23
Consensus pattern (9 bp):
TCAAGTAAC
Found at i:108505422 original size:9 final size:9
Alignment explanation
Indices: 108505391--108505425 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
108505381 AAAATTTTAT
*
108505391 TCAAGTAAC
1 TCAAATAAC
*
108505400 TCAAGTAAC
1 TCAAATAAC
108505409 TCAAATAAC
1 TCAAATAAC
108505418 TCAAATAA
1 TCAAATAA
108505426 GTAAAACTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.51, C:0.20, G:0.06, T:0.23
Consensus pattern (9 bp):
TCAAATAAC
Found at i:108508693 original size:13 final size:11
Alignment explanation
Indices: 108508654--108508696 Score: 68
Period size: 11 Copynumber: 3.7 Consensus size: 11
108508644 GATATAAACT
108508654 TATAAAAAAAA
1 TATAAAAAAAA
108508665 TATAAAAAAAA
1 TATAAAAAAAA
108508676 TATAAAAAAAA
1 TATAAAAAAAA
108508687 GTCATAAAAA
1 -T-ATAAAAA
108508697 CCGAATCAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
11 22 0.73
12 1 0.03
13 7 0.23
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (11 bp):
TATAAAAAAAA
Found at i:108514835 original size:10 final size:10
Alignment explanation
Indices: 108514808--108514878 Score: 74
Period size: 10 Copynumber: 6.9 Consensus size: 10
108514798 TTAAATTCTA
108514808 AAAGATAAAT
1 AAAGATAAAT
108514818 ACAA-ATAAAT
1 A-AAGATAAAT
*
108514828 AAAGATAATT
1 AAAGATAAAT
108514838 AAAGATAAAT
1 AAAGATAAAT
108514848 AAAGATAAA-
1 AAAGATAAAT
*
108514857 AGCTAGGATAAAT
1 A---AAGATAAAT
108514870 AAAGATAAA
1 AAAGATAAA
108514879 AGCTAAAATT
Statistics
Matches: 51, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
9 3 0.06
10 38 0.75
11 2 0.04
12 7 0.14
13 1 0.02
ACGTcount: A:0.66, C:0.03, G:0.11, T:0.20
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:108514869 original size:22 final size:22
Alignment explanation
Indices: 108514841--108514883 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
108514831 GATAATTAAA
108514841 GATAAATAAAGATAAAAGCTAG
1 GATAAATAAAGATAAAAGCTAG
108514863 GATAAATAAAGATAAAAGCTA
1 GATAAATAAAGATAAAAGCTA
108514884 AAATTAAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.60, C:0.05, G:0.16, T:0.19
Consensus pattern (22 bp):
GATAAATAAAGATAAAAGCTAG
Found at i:108514929 original size:14 final size:13
Alignment explanation
Indices: 108514893--108514930 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
108514883 AAAATTAAAT
108514893 CTAAATAATTATC
1 CTAAATAATTATC
*
108514906 CTTAATAATTATC
1 CTAAATAATTATC
108514919 CTAATATAATTA
1 CTAA-ATAATTA
108514931 GAATTTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.42
Consensus pattern (13 bp):
CTAAATAATTATC
Found at i:108515529 original size:3 final size:3
Alignment explanation
Indices: 108515523--108515560 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
108515513 TTTGTTCCTC
108515523 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
108515561 GCTTAATAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:108516889 original size:13 final size:13
Alignment explanation
Indices: 108516873--108516917 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
108516863 ATCCAAACAA
108516873 AATAAAATAATAT
1 AATAAAATAATAT
*
108516886 AATATAATAATAT
1 AATAAAATAATAT
*
108516899 AAT-AAATAATAA
1 AATAAAATAATAT
108516911 AATAAAA
1 AATAAAA
108516918 ATAAAAATTG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
12 10 0.36
13 18 0.64
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (13 bp):
AATAAAATAATAT
Found at i:108516920 original size:18 final size:18
Alignment explanation
Indices: 108516871--108516922 Score: 61
Period size: 20 Copynumber: 2.8 Consensus size: 18
108516861 ATATCCAAAC
108516871 AAAAT-AAAATAATATAAT
1 AAAATAAAAATAA-ATAAT
*
108516889 ATAATAATATAATAAATAAT
1 AAAATAA-A-AATAAATAAT
108516909 AAAATAAAAATAAA
1 AAAATAAAAATAAA
108516923 AATTGAGTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
18 10 0.34
19 2 0.07
20 12 0.41
21 5 0.17
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (18 bp):
AAAATAAAAATAAATAAT
Found at i:108516925 original size:12 final size:12
Alignment explanation
Indices: 108516871--108516923 Score: 63
Period size: 13 Copynumber: 4.3 Consensus size: 12
108516861 ATATCCAAAC
108516871 AAAATAAAATAAT
1 AAAAT-AAATAAT
*
108516884 ATAATATAATAAT
1 AAAATA-AATAAT
*
108516897 ATAATAAATAAT
1 AAAATAAATAAT
108516909 AAAATAAA-AAT
1 AAAATAAATAAT
108516920 AAAA
1 AAAA
108516924 ATTGAGTTTC
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
11 7 0.19
12 14 0.38
13 16 0.43
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (12 bp):
AAAATAAATAAT
Found at i:108523350 original size:10 final size:10
Alignment explanation
Indices: 108523280--108523350 Score: 72
Period size: 10 Copynumber: 6.9 Consensus size: 10
108523270 TTAAATTCTA
108523280 AAAGATAAAT
1 AAAGATAAAT
*
108523290 ACAA-ATAAAA
1 A-AAGATAAAT
*
108523300 AAAGATAATT
1 AAAGATAAAT
108523310 AAAGATAAAT
1 AAAGATAAAT
108523320 AAAGATAAAAGT
1 AAAGAT-AAA-T
* *
108523332 TAGGATAAAT
1 AAAGATAAAT
108523342 AAAGATAAA
1 AAAGATAAA
108523351 AGCTAAAATT
Statistics
Matches: 49, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
9 2 0.04
10 34 0.69
11 8 0.16
12 5 0.10
ACGTcount: A:0.68, C:0.01, G:0.11, T:0.20
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:108525591 original size:19 final size:17
Alignment explanation
Indices: 108525563--108525601 Score: 51
Period size: 19 Copynumber: 2.2 Consensus size: 17
108525553 CATATGTTGA
108525563 TAGTTGGATAATGAAATTT
1 TAGTTGGATAA--AAATTT
*
108525582 TAGTTTGATAAAAATTT
1 TAGTTGGATAAAAATTT
108525599 TAG
1 TAG
108525602 ATAATAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 9 0.47
19 10 0.53
ACGTcount: A:0.38, C:0.00, G:0.18, T:0.44
Consensus pattern (17 bp):
TAGTTGGATAAAAATTT
Found at i:108527742 original size:94 final size:94
Alignment explanation
Indices: 108527577--108527769 Score: 307
Period size: 94 Copynumber: 2.1 Consensus size: 94
108527567 CCAACATGTT
*
108527577 AACA-CCATATTACACATGATCTTTTCCTATAAATACCTTCAAGAATGATGAAGATGGATTAACC
1 AACACCCATATTACACATGATCTTTTCCTATAAATACCTTCAAGAATGATGAAGATGGATCAACC
*
108527641 CTTCAAAAACACGAAGATTGCATCTTGCC
66 CTTCAAAAACACGAAGATTACATCTTGCC
* * *
108527670 AACACCCATATTACACATGATCTTTTCCTATAAATACTTTCAAGAATGATGAAGATGGATCGAGC
1 AACACCCATATTACACATGATCTTTTCCTATAAATACCTTCAAGAATGATGAAGATGGATCAACC
* * *
108527735 CTTCAAAAGCACTACGATTACATCTTGCC
66 CTTCAAAAACACGAAGATTACATCTTGCC
108527764 AACACC
1 AACACC
108527770 TTTTTAGCCC
Statistics
Matches: 91, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
93 4 0.04
94 87 0.96
ACGTcount: A:0.37, C:0.24, G:0.12, T:0.27
Consensus pattern (94 bp):
AACACCCATATTACACATGATCTTTTCCTATAAATACCTTCAAGAATGATGAAGATGGATCAACC
CTTCAAAAACACGAAGATTACATCTTGCC
Found at i:108529465 original size:108 final size:108
Alignment explanation
Indices: 108529291--108529503 Score: 336
Period size: 108 Copynumber: 2.0 Consensus size: 108
108529281 TATTAGCATC
*
108529291 TGGCCAAAGCAACCTTCCACAAAGATCACCTTGTAAGAGATTTCAAGACTATAAGCAACCAAGGA
1 TGGCCAAAGCAACCTTCCACAAAGATCACCTCGTAAGAGATTTCAAGACTATAAGCAACCAAGGA
*
108529356 CCATCAACAACCAAGGACTAGTTTAGAACTCCAAACCTGACAT
66 CCATCAACAACCAAGGACCAGTTTAGAACTCCAAACCTGACAT
* **
108529399 TGGCCAAAGCAACCTTCCACAAAGATCACCTCGTAAGAGATTTCAAGACTATCAGCAGTCAAGGA
1 TGGCCAAAGCAACCTTCCACAAAGATCACCTCGTAAGAGATTTCAAGACTATAAGCAACCAAGGA
* * * * *
108529464 CCATTAGCAGCCTATGACCAGTTTAGAACTCCAAACCTGA
66 CCATCAACAACCAAGGACCAGTTTAGAACTCCAAACCTGA
108529504 TATAACACCA
Statistics
Matches: 95, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
108 95 1.00
ACGTcount: A:0.38, C:0.27, G:0.16, T:0.19
Consensus pattern (108 bp):
TGGCCAAAGCAACCTTCCACAAAGATCACCTCGTAAGAGATTTCAAGACTATAAGCAACCAAGGA
CCATCAACAACCAAGGACCAGTTTAGAACTCCAAACCTGACAT
Found at i:108536453 original size:6 final size:6
Alignment explanation
Indices: 108536442--108536480 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
108536432 GATATGAAAT
108536442 AAAAAC AAAAAC AAAAAC AAAAAC AAAAA- AAAAA- AAAAA
1 AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAAA
108536481 GGTTAGAACA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 10 0.30
6 23 0.70
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (6 bp):
AAAAAC
Found at i:108537941 original size:39 final size:39
Alignment explanation
Indices: 108537897--108537975 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
108537887 AGAACATCTG
*
108537897 CCTAATCCAAGATCATAAAGAGCACCAGAATCAGAAAAT
1 CCTAATCCAACATCATAAAGAGCACCAGAATCAGAAAAT
108537936 CCTAATCCAACATCATAAAGAGCACCAGAATCAGAAAAT
1 CCTAATCCAACATCATAAAGAGCACCAGAATCAGAAAAT
108537975 C
1 C
108537976 TCAAGTCCCA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.48, C:0.25, G:0.11, T:0.15
Consensus pattern (39 bp):
CCTAATCCAACATCATAAAGAGCACCAGAATCAGAAAAT
Found at i:108539326 original size:11 final size:11
Alignment explanation
Indices: 108539312--108539347 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
108539302 AGTGATAAAT
108539312 AAATTAATGAA
1 AAATTAATGAA
108539323 AAATTAATGAA
1 AAATTAATGAA
* *
108539334 AAATAAAAGAA
1 AAATTAATGAA
108539345 AAA
1 AAA
108539348 AAATTCAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.72, C:0.00, G:0.08, T:0.19
Consensus pattern (11 bp):
AAATTAATGAA
Found at i:108540241 original size:15 final size:14
Alignment explanation
Indices: 108540214--108540249 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
108540204 TTATTTTAAT
108540214 TTTATAAATTTTTA
1 TTTATAAATTTTTA
108540228 TTTATTAAATTTTTA
1 TTTA-TAAATTTTTA
*
108540243 TATATAA
1 TTTATAA
108540250 CTAGAAATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
TTTATAAATTTTTA
Found at i:108543829 original size:16 final size:16
Alignment explanation
Indices: 108543808--108543838 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
108543798 TTCACTATTA
*
108543808 TGTCTTTTGTATTTTC
1 TGTCTTTTATATTTTC
108543824 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
108543839 GCATGCATAG
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:0.10, C:0.10, G:0.10, T:0.71
Consensus pattern (16 bp):
TGTCTTTTATATTTTC
Found at i:108549920 original size:20 final size:20
Alignment explanation
Indices: 108549884--108549921 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
108549874 CCACATCAGA
*
108549884 AAAATAAAAGTTTAAGTACT
1 AAAATAAAAGTTCAAGTACT
108549904 AAAATAGAAA-TTCAAGTA
1 AAAATA-AAAGTTCAAGTA
108549922 TATTTCAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.58, C:0.05, G:0.11, T:0.26
Consensus pattern (20 bp):
AAAATAAAAGTTCAAGTACT
Found at i:108550951 original size:13 final size:13
Alignment explanation
Indices: 108550935--108550964 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
108550925 AAATTAACAA
108550935 AAAATATTAAATT
1 AAAATATTAAATT
108550948 AAAATATTAAATT
1 AAAATATTAAATT
108550961 AAAA
1 AAAA
108550965 ACATGATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
AAAATATTAAATT
Found at i:108551469 original size:115 final size:113
Alignment explanation
Indices: 108551241--108551582 Score: 469
Period size: 115 Copynumber: 3.0 Consensus size: 113
108551231 TTTTAAATAC
* * * * * *
108551241 AATAACTAAAACTATTAAAAGTTTGCTTTAAGTAACATTTATATCTTCTCTC--T-T-TATTGAA
1 AATAACTAAAAATATTAAAATTTTACTTTAAATAATATTTATACCTTCTCTCTATATATATTGAA
* *
108551302 ATTGAATAAAATTGTTTTTGTCACTTCCAATTGAATTGGTGTCCAGTT
66 ATTGAATAAAATTGTTTTTGTCATTTCCAATTGAATTGGTGTCTAGTT
108551350 AATAACTAAAAATATTAAAATTTTACTTTAAATAATATTTATACCTTCTCTCTTTATATATATTG
1 AATAACTAAAAATATTAAAATTTTACTTTAAATAATATTTATACCTTCTCTC--TATATATATTG
* *
108551415 AAATTGAATAAAATTGTTTTTGTTATTTCCAATTGAATTGATGTCTAGTT
64 AAATTGAATAAAATTGTTTTTGTCATTTCCAATTGAATTGGTGTCTAGTT
* *
108551465 AATAATTAAAAATTTTAAAATTTTACTTTAAATAATATTTATACCTTCTCTCTCGATATATATTG
1 AATAACTAAAAATATTAAAATTTTACTTTAAATAATATTTATACCTTCTCTCT--ATATATATTG
* * *
108551530 AAATTAAATAAAGTTGTTTTTGTCATTTTCAACTT-AATTGGTGTCTAGTT
64 AAATTGAATAAAATTGTTTTTGTCATTTCCAA-TTGAATTGGTGTCTAGTT
108551580 AAT
1 AAT
108551583 TCAATTATAG
Statistics
Matches: 207, Mismatches: 17, Indels: 12
0.88 0.07 0.05
Matches are distributed among these distances:
109 46 0.22
113 2 0.01
114 1 0.00
115 156 0.75
116 2 0.01
ACGTcount: A:0.36, C:0.10, G:0.08, T:0.46
Consensus pattern (113 bp):
AATAACTAAAAATATTAAAATTTTACTTTAAATAATATTTATACCTTCTCTCTATATATATTGAA
ATTGAATAAAATTGTTTTTGTCATTTCCAATTGAATTGGTGTCTAGTT
Found at i:108552408 original size:23 final size:24
Alignment explanation
Indices: 108552382--108552431 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 24
108552372 TAATTTTTAA
*
108552382 ATTTTA-AATTATTTAGTGATAAT
1 ATTTTAGAATTATTTAATGATAAT
*
108552405 A-TTTAGGATTATTTAATGATAAT
1 ATTTTAGAATTATTTAATGATAAT
108552428 ATTT
1 ATTT
108552432 AATAAAAATC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 4 0.17
23 17 0.74
24 2 0.09
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.52
Consensus pattern (24 bp):
ATTTTAGAATTATTTAATGATAAT
Found at i:108552409 original size:13 final size:13
Alignment explanation
Indices: 108552391--108552432 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
108552381 AATTTTAAAT
108552391 TATTTAGTGATAA
1 TATTTAGTGATAA
108552404 TATTTAG-GAT--
1 TATTTAGTGATAA
*
108552414 TATTTAATGATAA
1 TATTTAGTGATAA
108552427 TATTTA
1 TATTTA
108552433 ATAAAAATCT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
10 6 0.24
11 3 0.12
12 3 0.12
13 13 0.52
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:108552432 original size:23 final size:23
Alignment explanation
Indices: 108552389--108552432 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
108552379 TAAATTTTAA
*
108552389 ATTATTTAGTGATAATATTTAGG
1 ATTATTTAATGATAATATTTAGG
108552412 ATTATTTAATGATAATATTTA
1 ATTATTTAATGATAATATTTA
108552433 ATAAAAATCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (23 bp):
ATTATTTAATGATAATATTTAGG
Found at i:108561266 original size:21 final size:21
Alignment explanation
Indices: 108561242--108561281 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
108561232 GACTAAATAA
* *
108561242 AAAACATTTGAAAATTTTAGG
1 AAAACAGTTGAAAAATTTAGG
*
108561263 AAAAGAGTTGAAAAATTTA
1 AAAACAGTTGAAAAATTTA
108561282 AACTGTAGGG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.53, C:0.03, G:0.15, T:0.30
Consensus pattern (21 bp):
AAAACAGTTGAAAAATTTAGG
Found at i:108561784 original size:18 final size:19
Alignment explanation
Indices: 108561752--108561787 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
108561742 TATATATATG
108561752 TACTATAATAATTAAGTAA
1 TACTATAATAATTAAGTAA
*
108561771 TACT-TAATATTTAAGTA
1 TACTATAATAATTAAGTA
108561788 CTATATATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.42
Consensus pattern (19 bp):
TACTATAATAATTAAGTAA
Found at i:108561917 original size:12 final size:14
Alignment explanation
Indices: 108561888--108561924 Score: 60
Period size: 12 Copynumber: 2.8 Consensus size: 14
108561878 AAAACAGGGG
108561888 AGAAAAAGAGAGAA
1 AGAAAAAGAGAGAA
108561902 AGAAAAAGA-A-AA
1 AGAAAAAGAGAGAA
108561914 AGAAAAAGAGA
1 AGAAAAAGAGA
108561925 AATTAGGGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 11 0.50
13 2 0.09
14 9 0.41
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (14 bp):
AGAAAAAGAGAGAA
Found at i:108561919 original size:5 final size:6
Alignment explanation
Indices: 108561888--108561922 Score: 52
Period size: 6 Copynumber: 5.5 Consensus size: 6
108561878 AAAACAGGGG
108561888 AGAAAA AGAGAGAA AGAAAA AGAAAA AGAAAA AGA
1 AGAAAA AGA-A-AA AGAAAA AGAAAA AGAAAA AGA
108561923 GAAATTAGGG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 20 0.74
7 2 0.07
8 5 0.19
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:108562573 original size:5 final size:5
Alignment explanation
Indices: 108562560--108562642 Score: 157
Period size: 5 Copynumber: 16.6 Consensus size: 5
108562550 GAGTATTGGT
*
108562560 ATTGA ATTGT ATTGA ATTGA ATTGA ATTGA ATTGA ATTGA ATTGA ATTGA
1 ATTGA ATTGA ATTGA ATTGA ATTGA ATTGA ATTGA ATTGA ATTGA ATTGA
108562610 ATTGA ATTGA ATTGA ATTGA ATTGA ATTGA ATT
1 ATTGA ATTGA ATTGA ATTGA ATTGA ATTGA ATT
108562643 ATGAGTATAT
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 76 1.00
ACGTcount: A:0.39, C:0.00, G:0.19, T:0.42
Consensus pattern (5 bp):
ATTGA
Found at i:108563696 original size:27 final size:27
Alignment explanation
Indices: 108563666--108563722 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
108563656 AAAAAAGTAG
108563666 AAAAAAATCCAAACACAAA-AAAATAAT
1 AAAAAAAT-CAAACACAAATAAAATAAT
*
108563693 AAAAAAATCAAACAGAAATAAAATAAT
1 AAAAAAATCAAACACAAATAAAATAAT
108563720 AAA
1 AAA
108563723 TTAAAGTGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
26 9 0.32
27 19 0.68
ACGTcount: A:0.75, C:0.11, G:0.02, T:0.12
Consensus pattern (27 bp):
AAAAAAATCAAACACAAATAAAATAAT
Found at i:108563997 original size:12 final size:12
Alignment explanation
Indices: 108563962--108564009 Score: 60
Period size: 12 Copynumber: 3.8 Consensus size: 12
108563952 CCACGAGTGG
*
108563962 CTCCTCGCACGGC
1 CTCCTCGCAC-GT
108563975 CTCCTTCGCACGT
1 CTCC-TCGCACGT
108563988 CTCCTCGCACGT
1 CTCCTCGCACGT
*
108564000 CTCCTTGCAC
1 CTCCTCGCAC
108564010 CTTCGTACGG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
12 17 0.53
13 9 0.28
14 6 0.19
ACGTcount: A:0.08, C:0.50, G:0.17, T:0.25
Consensus pattern (12 bp):
CTCCTCGCACGT
Done.