Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr6
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: 44797108
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 921406 characters in sequence are not A, C, G, or T
File 13 of 144
Found at i:3127834 original size:58 final size:58
Alignment explanation
Indices: 3127771--3127894 Score: 178
Period size: 58 Copynumber: 2.1 Consensus size: 58
3127761 TTTTAATAAG
* *
3127771 ATTATTATTAAAAATAATTTAATAAAAATAATAAATAATTTAACCATATT-TTAACATA
1 ATTATTATTAAAAATAATTTAAT-AAAATAATAAATAATTTAACAAAATTCTTAACATA
* * * *
3127829 ATTATTATTAAATATAATTTAATAAAATAATATATAATTTAATAAAATTCTTAATATA
1 ATTATTATTAAAAATAATTTAATAAAATAATAAATAATTTAACAAAATTCTTAACATA
3127887 ATTATTAT
1 ATTATTAT
3127895 ATGAATTAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
57 22 0.37
58 37 0.63
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (58 bp):
ATTATTATTAAAAATAATTTAATAAAATAATAAATAATTTAACAAAATTCTTAACATA
Found at i:3130885 original size:24 final size:25
Alignment explanation
Indices: 3130840--3130887 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
3130830 GAAGAAAAGA
*
3130840 GTTAACAGAAAAAATGGCAATAAAT
1 GTTAACAGAAAAAATGGAAATAAAT
3130865 GTTAA-AGAAAAAA-GGAAAATAAA
1 GTTAACAGAAAAAATGG-AAATAAA
3130888 GACACAAACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 2 0.10
24 14 0.67
25 5 0.24
ACGTcount: A:0.62, C:0.04, G:0.17, T:0.17
Consensus pattern (25 bp):
GTTAACAGAAAAAATGGAAATAAAT
Found at i:3131030 original size:23 final size:25
Alignment explanation
Indices: 3130986--3131046 Score: 72
Period size: 23 Copynumber: 2.4 Consensus size: 25
3130976 AAATGTTGAG
3130986 GAAGAAATCTGCTGAAGTGAAAAAGTA
1 GAAGAAATCTGCT--AGTGAAAAAGTA
* *
3131013 GAAGAAATCTGCT-G-GAAAGAGTT
1 GAAGAAATCTGCTAGTGAAAAAGTA
3131036 GAAGAAATCTG
1 GAAGAAATCTG
3131047 AGGGAATAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
23 18 0.56
24 1 0.03
27 13 0.41
ACGTcount: A:0.44, C:0.08, G:0.28, T:0.20
Consensus pattern (25 bp):
GAAGAAATCTGCTAGTGAAAAAGTA
Found at i:3131052 original size:23 final size:23
Alignment explanation
Indices: 3131004--3131052 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
3130994 CTGCTGAAGT
**
3131004 GAAAAAGTAGAAGAAATCTGCTG
1 GAAAAAGTAGAAGAAATCTGAGG
* *
3131027 GAAAGAGTTGAAGAAATCTGAGG
1 GAAAAAGTAGAAGAAATCTGAGG
3131050 GAA
1 GAA
3131053 TAAACATGAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.47, C:0.06, G:0.31, T:0.16
Consensus pattern (23 bp):
GAAAAAGTAGAAGAAATCTGAGG
Found at i:3134091 original size:34 final size:34
Alignment explanation
Indices: 3134020--3134092 Score: 121
Period size: 34 Copynumber: 2.2 Consensus size: 34
3134010 ATGTGAGTCT
*
3134020 AGTT-TTAGAGAAAATTTTCATATCTCAATTTTA
1 AGTTCTTAGAGAAAATTTTCATATCTCAATTTGA
*
3134053 AGTTCTTAGAGAAAATTTTCATATCTCAATTTGG
1 AGTTCTTAGAGAAAATTTTCATATCTCAATTTGA
3134087 AGTTCT
1 AGTTCT
3134093 GTAGCTTAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
33 4 0.11
34 33 0.89
ACGTcount: A:0.33, C:0.11, G:0.12, T:0.44
Consensus pattern (34 bp):
AGTTCTTAGAGAAAATTTTCATATCTCAATTTGA
Found at i:3151859 original size:40 final size:43
Alignment explanation
Indices: 3151791--3151886 Score: 135
Period size: 42 Copynumber: 2.3 Consensus size: 43
3151781 TTCGGTATCG
3151791 CACACTTAGTGCCCGTTATTCAACATCTC-CATTTTAATTTCA
1 CACACTTAGTGCCCGTTATTCAACATCTCGCATTTTAATTTCA
* * *
3151833 CACACTTAGTGCCCTTTATTC-A-ATCTCGTCATTTTAGTTTCG
1 CACACTTAGTGCCCGTTATTCAACATCTCG-CATTTTAATTTCA
3151875 CACACTTAGTGC
1 CACACTTAGTGC
3151887 TGTTCATATA
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
40 5 0.10
41 1 0.02
42 43 0.88
ACGTcount: A:0.23, C:0.28, G:0.10, T:0.39
Consensus pattern (43 bp):
CACACTTAGTGCCCGTTATTCAACATCTCGCATTTTAATTTCA
Found at i:3157317 original size:21 final size:21
Alignment explanation
Indices: 3157293--3157333 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
3157283 TATATATGTT
*
3157293 TAATTAAGC-TTTAGTTAATCG
1 TAATTAA-CTTTTAATTAATCG
3157314 TAATTAACTTTTAATTAATC
1 TAATTAACTTTTAATTAATC
3157334 TTTTCTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.37, C:0.10, G:0.07, T:0.46
Consensus pattern (21 bp):
TAATTAACTTTTAATTAATCG
Found at i:3159215 original size:14 final size:14
Alignment explanation
Indices: 3159196--3159223 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
3159186 GATTGCCTCG
3159196 GATGTCGCAACAAC
1 GATGTCGCAACAAC
3159210 GATGTCGCAACAAC
1 GATGTCGCAACAAC
3159224 AAAGCTAGCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.29, G:0.21, T:0.14
Consensus pattern (14 bp):
GATGTCGCAACAAC
Found at i:3160379 original size:14 final size:14
Alignment explanation
Indices: 3160356--3160386 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
3160346 TGCCACATTC
*
3160356 TTAGTTAATTTAGA
1 TTAGTAAATTTAGA
3160370 TTAGTAAATTTAGA
1 TTAGTAAATTTAGA
3160384 TTA
1 TTA
3160387 AAACAATTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.48
Consensus pattern (14 bp):
TTAGTAAATTTAGA
Found at i:3165500 original size:21 final size:21
Alignment explanation
Indices: 3165474--3165514 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
3165464 ATCTGCTCAA
* *
3165474 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
3165495 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
3165515 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:3171566 original size:26 final size:26
Alignment explanation
Indices: 3171514--3171568 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
3171504 GACTATATAA
* **
3171514 AAAATTTCTATAAATAAAAATTGTAT
1 AAAATTACTATAAATAAAAATAATAT
3171540 AAAATTACTA-AATATAAAAATAATAT
1 AAAATTACTATAA-ATAAAAATAATAT
3171566 AAA
1 AAA
3171569 CGGGACCAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 2 0.08
26 23 0.92
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.33
Consensus pattern (26 bp):
AAAATTACTATAAATAAAAATAATAT
Found at i:3175944 original size:2 final size:2
Alignment explanation
Indices: 3175939--3175969 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
3175929 TAGTGTGTAT
3175939 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
3175970 TACAGGTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:3176574 original size:31 final size:31
Alignment explanation
Indices: 3176530--3176610 Score: 110
Period size: 31 Copynumber: 2.6 Consensus size: 31
3176520 CGGGGATGAG
* *
3176530 TAAATTTACAATTT-AGTCATTTAATTATTAA
1 TAAATTTATAATTTGA-TCACTTAATTATTAA
*
3176561 TAATTTTATAATTTGATCACTTAATTATTAA
1 TAAATTTATAATTTGATCACTTAATTATTAA
*
3176592 TAAATTTGTAATTTGATCA
1 TAAATTTATAATTTGATCA
3176611 TGCTTAGTAA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
31 43 0.98
32 1 0.02
ACGTcount: A:0.40, C:0.06, G:0.05, T:0.49
Consensus pattern (31 bp):
TAAATTTATAATTTGATCACTTAATTATTAA
Found at i:3178311 original size:21 final size:21
Alignment explanation
Indices: 3178287--3178328 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
3178277 TATAAGGTTC
*
3178287 TATGTTCTTGATATGTTAGTG
1 TATGTTCTTGATATGCTAGTG
3178308 TATGTTCTTGATATGCTAGTG
1 TATGTTCTTGATATGCTAGTG
3178329 AAGGGAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.19, C:0.07, G:0.24, T:0.50
Consensus pattern (21 bp):
TATGTTCTTGATATGCTAGTG
Found at i:3182298 original size:3 final size:3
Alignment explanation
Indices: 3182290--3182317 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
3182280 AATTATATTC
3182290 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
3182318 TGAATTATGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:3182913 original size:21 final size:21
Alignment explanation
Indices: 3182889--3182971 Score: 69
Period size: 21 Copynumber: 4.0 Consensus size: 21
3182879 CACGAGCTTC
* *
3182889 TGTTTAACTCATATGAGTTTT
1 TGTTTAACCCTTATGAGTTTT
*
3182910 TGTTTAACCCTTATGGGTTTT
1 TGTTTAACCCTTATGAGTTTT
* * * * * *
3182931 CGTTCAGCTC-TATTGAGCTTC
1 TGTTTAACCCTTA-TGAGTTTT
3182952 TGTTTAACCCTTATGAGTTT
1 TGTTTAACCCTTATGAGTTT
3182972 CAATTCAGCT
Statistics
Matches: 45, Mismatches: 15, Indels: 4
0.70 0.23 0.06
Matches are distributed among these distances:
20 2 0.04
21 41 0.91
22 2 0.04
ACGTcount: A:0.18, C:0.17, G:0.17, T:0.48
Consensus pattern (21 bp):
TGTTTAACCCTTATGAGTTTT
Found at i:3182992 original size:42 final size:42
Alignment explanation
Indices: 3182910--3182992 Score: 107
Period size: 42 Copynumber: 2.0 Consensus size: 42
3182900 TATGAGTTTT
* * *
3182910 TGTTTAACCCTTATGGGTTTTCGTTCAGCTCTATTGAGCTTC
1 TGTTTAACCCTTATGAGTTTTCATTCAGCTCTATTAAGCTTC
3182952 TGTTTAACCCTTATGAG-TTTCAATTCAGCTCT-TGTAAGCTT
1 TGTTTAACCCTTATGAGTTTTC-ATTCAGCTCTAT-TAAGCTT
3182993 TCATTCAACC
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
41 5 0.14
42 31 0.86
ACGTcount: A:0.18, C:0.20, G:0.17, T:0.45
Consensus pattern (42 bp):
TGTTTAACCCTTATGAGTTTTCATTCAGCTCTATTAAGCTTC
Found at i:3186167 original size:37 final size:36
Alignment explanation
Indices: 3186105--3186189 Score: 134
Period size: 37 Copynumber: 2.3 Consensus size: 36
3186095 ATCAATGACA
* *
3186105 AGTGATAAGTGGTAGTTTAGCTACACTTATCTGATC
1 AGTGATAAGTGATAGTTTAGCTACACTTATCTCATC
*
3186141 AGTGATAAGTGATAGCTTTAGCTACACTTATCTCATT
1 AGTGATAAGTGATAG-TTTAGCTACACTTATCTCATC
3186178 AGTGATAAGTGA
1 AGTGATAAGTGA
3186190 CAAGTGATAA
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
36 14 0.31
37 31 0.69
ACGTcount: A:0.31, C:0.13, G:0.21, T:0.35
Consensus pattern (36 bp):
AGTGATAAGTGATAGTTTAGCTACACTTATCTCATC
Found at i:3186220 original size:51 final size:44
Alignment explanation
Indices: 3186091--3186333 Score: 254
Period size: 44 Copynumber: 5.6 Consensus size: 44
3186081 TTTGAATATT
3186091 TCTGATCAA-TGACAAGTGATAAGTGGTAG-TTTAGCTACACTTA
1 TCTGAT-AAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
3186134 TCTG---A-T--C-AGTGATAAGTGATAGCTTTAGCTACACTTA
1 TCTGATAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTA
* *
3186171 TCTCATTAGTGATAAGTGACAAGTGATAAGTTGTAGCTTTAGCTGCACTTA
1 --TC-----TGATAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
3186222 TCTGATCAGTGACAAGTGATAAGTGGTAGC-TTAGCTACACTTA
1 TCTGATAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTA
** *
3186265 TCTGATCGGTGACAAGTGATAAGTGGTAGCTTTAGCTGCACTTA
1 TCTGATAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTA
* * *
3186309 TCTAATCAGTGACAAGTGACAAGTG
1 TCTGATAAGTGACAAGTGATAAGTG
3186334 ATAAATGTGA
Statistics
Matches: 172, Mismatches: 12, Indels: 31
0.80 0.06 0.14
Matches are distributed among these distances:
36 14 0.08
37 15 0.09
39 4 0.02
43 45 0.26
44 62 0.36
47 1 0.01
48 1 0.01
49 2 0.01
50 1 0.01
51 27 0.16
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (44 bp):
TCTGATAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTA
Found at i:3186302 original size:87 final size:90
Alignment explanation
Indices: 3186091--3186333 Score: 304
Period size: 87 Copynumber: 2.8 Consensus size: 90
3186081 TTTGAATATT
* * *
3186091 TCTGATCAATGACAAGTGATAAGTGGTAG-TTTAGCTACACTTATCTGATCAGTGATAAGTGAT-
1 TCTGATCAGTGACAAGTGATAAGTGGTAGCTTTAGCTGCACTTATCTGATCAGTGACAAGTGATA
* *
3186154 AGCT-TTAGCTACACTTATCTCATTA
66 AG-TGGTAGCTACACTTATCACATTA
* * *
3186179 -GTGATAAGTGACAAGTGATAAGTTGTAGCTTTAGCTGCACTTATCTGATCAGTGACAAGTGATA
1 TCTGATCAGTGACAAGTGATAAGTGGTAGCTTTAGCTGCACTTATCTGATCAGTGACAAGTGATA
*
3186243 AGTGGTAGCTTA-GC-TA-CAC-TTA
66 AGTGGTAGC-TACACTTATCACATTA
* * *
3186265 TCTGATCGGTGACAAGTGATAAGTGGTAGCTTTAGCTGCACTTATCTAATCAGTGACAAGTGACA
1 TCTGATCAGTGACAAGTGATAAGTGGTAGCTTTAGCTGCACTTATCTGATCAGTGACAAGTGATA
3186330 AGTG
66 AGTG
3186334 ATAAATGTGA
Statistics
Matches: 135, Mismatches: 15, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
86 3 0.02
87 88 0.65
88 35 0.26
89 7 0.05
90 2 0.01
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (90 bp):
TCTGATCAGTGACAAGTGATAAGTGGTAGCTTTAGCTGCACTTATCTGATCAGTGACAAGTGATA
AGTGGTAGCTACACTTATCACATTA
Found at i:3186325 original size:131 final size:127
Alignment explanation
Indices: 3186091--3186332 Score: 310
Period size: 131 Copynumber: 1.8 Consensus size: 127
3186081 TTTGAATATT
*
3186091 TCTGATCAATGACAAGTGATAAGTGGTAGTTTAGCTACACTTATCTGATCAGTGATAAGTGATAG
1 TCTGATCAATGACAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAGTGATAAGTGATAG
*
3186156 CTTTAGCTACACTTATCTCATTAGTGATAAGTGACAAGTGATAAGTTGTAGCTTTAGCTGCACTT
66 CTTTAGCTACACTTA-CTCA-TA--GATAAGTGACAAGTGACAAGTTGTAGCTTTAGCTGCACTT
3186221 A
127 A
*
3186222 TCTGATCAGTGACAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCGGTGACAAGTGATAA
1 TCTGATCAATGACAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGA----T--C-AGTGATAA
* * *
3186287 GTGGTAGCTTTAGCTGCACTTA-TC-TA-ATCAGTGACAAGTGACAAGT
59 GTGATAGCTTTAGCTACACTTACTCATAGATAAGTGACAAGTGACAAGT
3186333 GATAAATGTG
Statistics
Matches: 98, Mismatches: 6, Indels: 14
0.83 0.05 0.12
Matches are distributed among these distances:
131 64 0.65
134 2 0.02
135 1 0.01
136 2 0.02
137 1 0.01
138 28 0.29
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.32
Consensus pattern (127 bp):
TCTGATCAATGACAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAGTGATAAGTGATAG
CTTTAGCTACACTTACTCATAGATAAGTGACAAGTGACAAGTTGTAGCTTTAGCTGCACTTA
Found at i:3190325 original size:35 final size:35
Alignment explanation
Indices: 3190279--3190358 Score: 151
Period size: 35 Copynumber: 2.3 Consensus size: 35
3190269 CTCTTCCAAC
3190279 GAGGACCTTTCTTAGAAGTAGACATTTTTTTGTTG
1 GAGGACCTTTCTTAGAAGTAGACATTTTTTTGTTG
3190314 GAGGACCTTTCTTAGAAGTAGACATTTTTTTGTTG
1 GAGGACCTTTCTTAGAAGTAGACATTTTTTTGTTG
*
3190349 GAGGAACTTT
1 GAGGACCTTT
3190359 GTCTGTGGTA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 44 1.00
ACGTcount: A:0.24, C:0.11, G:0.24, T:0.41
Consensus pattern (35 bp):
GAGGACCTTTCTTAGAAGTAGACATTTTTTTGTTG
Found at i:3196083 original size:19 final size:19
Alignment explanation
Indices: 3196045--3196102 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 19
3196035 TTTAAAAAAA
*
3196045 TATAAAAATTTTGAAATTTT
1 TATAAATATTTTG-AATTTT
3196065 TATAAATATTTTGAA-TTT
1 TATAAATATTTTGAATTTT
*
3196083 TAAAAATTATTTTGAATTTT
1 TATAAA-TATTTTGAATTTT
3196103 CTAAATTTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
18 8 0.24
19 11 0.32
20 15 0.44
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.53
Consensus pattern (19 bp):
TATAAATATTTTGAATTTT
Found at i:3196108 original size:19 final size:18
Alignment explanation
Indices: 3196052--3196115 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 18
3196042 AAATATAAAA
*
3196052 ATTTTGAAATTTTTATAAAT
1 ATTTTG-AATTTTTA-AATT
*
3196072 ATTTTGAATTTTAAAAATT
1 ATTTTGAATTTT-TAAATT
3196091 ATTTTGAATTTTCTAAATTT
1 ATTTTGAATTTT-TAAA-TT
3196111 ATTTT
1 ATTTT
3196116 AAAATTATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
19 24 0.63
20 14 0.37
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.58
Consensus pattern (18 bp):
ATTTTGAATTTTTAAATT
Found at i:3196115 original size:20 final size:19
Alignment explanation
Indices: 3196052--3196102 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 19
3196042 AAATATAAAA
*
3196052 ATTTTGAAATTTTTATAAA-T
1 ATTTTG-AA-TTTTAAAAATT
3196072 ATTTTGAATTTTAAAAATT
1 ATTTTGAATTTTAAAAATT
3196091 ATTTTGAATTTT
1 ATTTTGAATTTT
3196103 CTAAATTTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 8 0.28
19 15 0.52
20 6 0.21
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (19 bp):
ATTTTGAATTTTAAAAATT
Found at i:3197917 original size:13 final size:13
Alignment explanation
Indices: 3197899--3197926 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
3197889 TACAAGAGAA
3197899 TTTTTTGAGAACT
1 TTTTTTGAGAACT
3197912 TTTTTTGAGAACT
1 TTTTTTGAGAACT
3197925 TT
1 TT
3197927 AACATTATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.07, G:0.14, T:0.57
Consensus pattern (13 bp):
TTTTTTGAGAACT
Found at i:3201401 original size:58 final size:57
Alignment explanation
Indices: 3201295--3201417 Score: 140
Period size: 59 Copynumber: 2.1 Consensus size: 57
3201285 TAACTTGGAC
* * *
3201295 AAAAAAAAGGTTAAAGTCCTAATGTAAGAACAATTGCCAAGTTTAGGGCCTAACTTAA
1 AAAAAAAAGGTTAAAGTCCGAATGTAAGAACAATTGCCAAATTCAGGG-CTAACTTAA
* * * * * *
3201353 ATAAAAAAAGGTTCAGGTCCGAATGT-GGGACAATTGTCAAATTCAGGGCTAACTTAG
1 A-AAAAAAAGGTTAAAGTCCGAATGTAAGAACAATTGCCAAATTCAGGGCTAACTTAA
3201410 AAAAAAAA
1 AAAAAAAA
3201418 TTTAACTCCC
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
56 7 0.13
57 9 0.16
58 18 0.33
59 21 0.38
ACGTcount: A:0.45, C:0.13, G:0.20, T:0.23
Consensus pattern (57 bp):
AAAAAAAAGGTTAAAGTCCGAATGTAAGAACAATTGCCAAATTCAGGGCTAACTTAA
Found at i:3202530 original size:12 final size:12
Alignment explanation
Indices: 3202515--3202539 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3202505 AAAAATAGAA
3202515 AAGGGTATGGGT
1 AAGGGTATGGGT
3202527 AAGGGTATGGGT
1 AAGGGTATGGGT
3202539 A
1 A
3202540 TGGAGGAAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.00, G:0.48, T:0.24
Consensus pattern (12 bp):
AAGGGTATGGGT
Found at i:3207643 original size:13 final size:13
Alignment explanation
Indices: 3207625--3207654 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
3207615 AGCCCAAACT
3207625 CAATTACCCAACC
1 CAATTACCCAACC
3207638 CAATTACCCAACC
1 CAATTACCCAACC
3207651 CAAT
1 CAAT
3207655 AAAACTAAAA
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:0.40, C:0.43, G:0.00, T:0.17
Consensus pattern (13 bp):
CAATTACCCAACC
Found at i:3207807 original size:9 final size:9
Alignment explanation
Indices: 3207795--3207853 Score: 75
Period size: 9 Copynumber: 6.4 Consensus size: 9
3207785 AAATAAAAAA
3207795 AATTCGGGT
1 AATTCGGGT
3207804 AATTCGGGT
1 AATTCGGGT
*
3207813 ATTTTTC-GGT
1 A--ATTCGGGT
*
3207823 AATTCGGTT
1 AATTCGGGT
3207832 AATTCGGGT
1 AATTCGGGT
3207841 AATTCGGGT
1 AATTCGGGT
3207850 AATT
1 AATT
3207854 TTTAACCAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
8 3 0.07
9 33 0.77
10 4 0.09
11 3 0.07
ACGTcount: A:0.22, C:0.10, G:0.27, T:0.41
Consensus pattern (9 bp):
AATTCGGGT
Found at i:3208700 original size:23 final size:22
Alignment explanation
Indices: 3208653--3208700 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
3208643 GCTACATCTT
***
3208653 AAATAAAAATAATATATGTTTC
1 AAATAAAAATAATATATGGCCC
3208675 AAATAAAAATAATAATATGGCCC
1 AAATAAAAATAAT-ATATGGCCC
3208698 AAA
1 AAA
3208701 GAGTTCGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 13 0.59
23 9 0.41
ACGTcount: A:0.58, C:0.08, G:0.06, T:0.27
Consensus pattern (22 bp):
AAATAAAAATAATATATGGCCC
Found at i:3209293 original size:2 final size:2
Alignment explanation
Indices: 3209286--3209315 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
3209276 ATTAAAGAAA
3209286 AT AT AT AT 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
3209316 GAAAACCTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3221057 original size:16 final size:15
Alignment explanation
Indices: 3221031--3221064 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
3221021 TATAATTAGT
*
3221031 GCAATAAAAAATATA
1 GCAATAAAAAATAAA
3221046 GCAATGAAAAAATAAA
1 GCAAT-AAAAAATAAA
3221062 GCA
1 GCA
3221065 GAGATGAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.65, C:0.09, G:0.12, T:0.15
Consensus pattern (15 bp):
GCAATAAAAAATAAA
Found at i:3222798 original size:32 final size:32
Alignment explanation
Indices: 3222761--3222837 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 32
3222751 ATGCATGTGT
* * **
3222761 GTAACTTTTCATCTTCAAGTCTCTTTGCATTA
1 GTAACTTTTCATATTCAAGCCTCTTCACATTA
* * *
3222793 TTAACTCTTCATATTCAAGCCTCTTCACATTC
1 GTAACTTTTCATATTCAAGCCTCTTCACATTA
3222825 GTAACTTTTCATA
1 GTAACTTTTCATA
3222838 ATTTATTTTG
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.25, C:0.25, G:0.06, T:0.44
Consensus pattern (32 bp):
GTAACTTTTCATATTCAAGCCTCTTCACATTA
Found at i:3223329 original size:18 final size:18
Alignment explanation
Indices: 3223306--3223340 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
3223296 TAACCAGAAG
3223306 TGCTT-CTGCTATAATCAA
1 TGCTTCCTGCTA-AATCAA
3223324 TGCTTCCTGCTAAATCA
1 TGCTTCCTGCTAAATCA
3223341 CTATCCGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.26, C:0.26, G:0.11, T:0.37
Consensus pattern (18 bp):
TGCTTCCTGCTAAATCAA
Found at i:3227308 original size:32 final size:32
Alignment explanation
Indices: 3227271--3227347 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 32
3227261 ATGCATGTGT
* * **
3227271 GTAACTTTTCATCTTCAAGTCTCTTTGCATTA
1 GTAACTTTTCATATTCAAGCCTCTTCACATTA
* * *
3227303 TTAACTCTTCATATTCAAGCCTCTTCACATTC
1 GTAACTTTTCATATTCAAGCCTCTTCACATTA
3227335 GTAACTTTTCATA
1 GTAACTTTTCATA
3227348 ATTTATTTTG
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.25, C:0.25, G:0.06, T:0.44
Consensus pattern (32 bp):
GTAACTTTTCATATTCAAGCCTCTTCACATTA
Found at i:3228175 original size:15 final size:15
Alignment explanation
Indices: 3228122--3228195 Score: 62
Period size: 16 Copynumber: 4.7 Consensus size: 15
3228112 GTCACATCAA
3228122 TAAATAATTGAAAATTT
1 TAAA-AATT-AAAATTT
* *
3228139 TAAAAAATATAATTAAT
1 TAAAAATTAAAATT--T
3228156 T-AAAATTAAAATTT
1 TAAAAATTAAAATTT
3228170 TAAAAA-TAAAATTT
1 TAAAAATTAAAATTT
*
3228184 TCATAAATTAAA
1 T-AAAAATTAAA
3228196 TAAATAGCAT
Statistics
Matches: 47, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
14 11 0.23
15 13 0.28
16 17 0.36
17 6 0.13
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.38
Consensus pattern (15 bp):
TAAAAATTAAAATTT
Found at i:3228192 original size:30 final size:30
Alignment explanation
Indices: 3228127--3228195 Score: 79
Period size: 30 Copynumber: 2.2 Consensus size: 30
3228117 ATCAATAAAT
*
3228127 AATTGAAAATTTTAAAAAATATAATTAATTAA
1 AATT-AAAATTTTAAAAAATAAAATT-ATTAA
3228159 AATTAAAATTTT-AAAAATAAAATT-TTCATA
1 AATTAAAATTTTAAAAAATAAAATTATT-A-A
3228189 AATTAAA
1 AATTAAA
3228196 TAAATAGCAT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
28 2 0.06
29 1 0.03
30 19 0.56
31 8 0.24
32 4 0.12
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.38
Consensus pattern (30 bp):
AATTAAAATTTTAAAAAATAAAATTATTAA
Found at i:3228951 original size:16 final size:17
Alignment explanation
Indices: 3228930--3228964 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
3228920 GTTTTTAATT
3228930 ATTTTTTAATTA-ATAA
1 ATTTTTTAATTATATAA
*
3228946 ATTTTTTATTTATATAA
1 ATTTTTTAATTATATAA
3228963 AT
1 AT
3228965 AAAATAGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
ATTTTTTAATTATATAA
Found at i:3229217 original size:23 final size:23
Alignment explanation
Indices: 3229184--3229228 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
3229174 ATAATATATT
* *
3229184 TATTAATTAAAAATTAAAAATAA
1 TATTAAATAAAAAATAAAAATAA
*
3229207 TATTAAATAAAAAATACAAATA
1 TATTAAATAAAAAATAAAAATA
3229229 CTGAGTATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (23 bp):
TATTAAATAAAAAATAAAAATAA
Found at i:3239242 original size:15 final size:15
Alignment explanation
Indices: 3239205--3239246 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
3239195 TTTATAGGTT
3239205 AATTATTAA-ATTAA
1 AATTATTAATATTAA
** *
3239219 TTTTTTTAATATTAA
1 AATTATTAATATTAA
3239234 AATTATTAATATT
1 AATTATTAATATT
3239247 CTAGTTTTTC
Statistics
Matches: 21, Mismatches: 6, Indels: 1
0.75 0.21 0.04
Matches are distributed among these distances:
14 6 0.29
15 15 0.71
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
AATTATTAATATTAA
Found at i:3248053 original size:22 final size:21
Alignment explanation
Indices: 3248028--3248072 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
3248018 TTTTAATAGT
* *
3248028 AAAATAATAGTAAAATAGTGAG
1 AAAATAACAGTAAAACAGT-AG
*
3248050 AAAATAGCAGTAAAACAGTAG
1 AAAATAACAGTAAAACAGTAG
3248071 AA
1 AA
3248073 TTTTTCTTAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.60, C:0.04, G:0.18, T:0.18
Consensus pattern (21 bp):
AAAATAACAGTAAAACAGTAG
Found at i:3252525 original size:41 final size:41
Alignment explanation
Indices: 3252480--3252564 Score: 161
Period size: 41 Copynumber: 2.1 Consensus size: 41
3252470 CATTGTTTTG
3252480 AGATAAGAATATCACAATTAGAAAAAGAATTTTGATGATAA
1 AGATAAGAATATCACAATTAGAAAAAGAATTTTGATGATAA
*
3252521 AGATAAGAATATCACACTTAGAAAAAGAATTTTGATGATAA
1 AGATAAGAATATCACAATTAGAAAAAGAATTTTGATGATAA
3252562 AGA
1 AGA
3252565 AATAAAGAAA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.53, C:0.06, G:0.15, T:0.26
Consensus pattern (41 bp):
AGATAAGAATATCACAATTAGAAAAAGAATTTTGATGATAA
Found at i:3252607 original size:16 final size:17
Alignment explanation
Indices: 3252588--3252619 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
3252578 AGTACCTTTT
3252588 AAAAATATTGT-ATTTA
1 AAAAATATTGTGATTTA
3252604 AAAAATATTGTGATTT
1 AAAAATATTGTGATTT
3252620 TTAAATTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (17 bp):
AAAAATATTGTGATTTA
Found at i:3253231 original size:6 final size:6
Alignment explanation
Indices: 3253215--3253253 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
3253205 GCTACATTTG
*
3253215 TGCGTT GGCGTT TGCGTT TGCGTT TGCGTT TGCGTT TGC
1 TGCGTT TGCGTT TGCGTT TGCGTT TGCGTT TGCGTT TGC
3253254 AATATAATAG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.00, C:0.18, G:0.36, T:0.46
Consensus pattern (6 bp):
TGCGTT
Found at i:3256922 original size:22 final size:21
Alignment explanation
Indices: 3256875--3256923 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
3256865 GTTAAACACT
*
3256875 ATACAATTTTATCTTTTACAA
1 ATACAATTTTATCTTCTACAA
*
3256896 TTACAATATTTATCTTACTA-AA
1 ATACAAT-TTTATCTT-CTACAA
3256918 ATACAA
1 ATACAA
3256924 ATTATTGGAG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 6 0.26
22 15 0.65
23 2 0.09
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (21 bp):
ATACAATTTTATCTTCTACAA
Found at i:3257379 original size:14 final size:14
Alignment explanation
Indices: 3257360--3257390 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
3257350 AGTCTCTTCA
3257360 TTATACTTTAATCT
1 TTATACTTTAATCT
*
3257374 TTATACTTTAATTT
1 TTATACTTTAATCT
3257388 TTA
1 TTA
3257391 ATATACTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.29, C:0.10, G:0.00, T:0.61
Consensus pattern (14 bp):
TTATACTTTAATCT
Found at i:3264268 original size:15 final size:16
Alignment explanation
Indices: 3264245--3264279 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
3264235 TTTATTTGCA
*
3264245 AATACTTTTTT-TAAG
1 AATAATTTTTTATAAG
3264260 AATAATTTTTTATAAG
1 AATAATTTTTTATAAG
3264276 AATA
1 AATA
3264280 TACAATAAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.49
Consensus pattern (16 bp):
AATAATTTTTTATAAG
Found at i:3273482 original size:23 final size:23
Alignment explanation
Indices: 3273438--3273497 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 23
3273428 TTTTGTATCA
3273438 AAATTATGCAAATATACAAAACAC
1 AAATTATGCAAATATACAAAAC-C
* * *
3273462 AAATTA-GTAAATATTCCAAACC
1 AAATTATGCAAATATACAAAACC
*
3273484 AAATATATGAAAAT
1 AAAT-TATGCAAAT
3273498 TAATCATGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
22 5 0.17
23 14 0.47
24 11 0.37
ACGTcount: A:0.57, C:0.13, G:0.05, T:0.25
Consensus pattern (23 bp):
AAATTATGCAAATATACAAAACC
Found at i:3278655 original size:89 final size:89
Alignment explanation
Indices: 3278504--3278682 Score: 358
Period size: 89 Copynumber: 2.0 Consensus size: 89
3278494 GCTGGTACTG
3278504 AAATTCTTCTATTAAAATTATTGGTATAAAAATTTAAAATTAAAAAATATTCACTTAATAGCCAT
1 AAATTCTTCTATTAAAATTATTGGTATAAAAATTTAAAATTAAAAAATATTCACTTAATAGCCAT
3278569 GTGATAAAAAATTGACATCGTAAT
66 GTGATAAAAAATTGACATCGTAAT
3278593 AAATTCTTCTATTAAAATTATTGGTATAAAAATTTAAAATTAAAAAATATTCACTTAATAGCCAT
1 AAATTCTTCTATTAAAATTATTGGTATAAAAATTTAAAATTAAAAAATATTCACTTAATAGCCAT
3278658 GTGATAAAAAATTGACATCGTAAT
66 GTGATAAAAAATTGACATCGTAAT
3278682 A
1 A
3278683 GATTTGAATT
Statistics
Matches: 90, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
89 90 1.00
ACGTcount: A:0.47, C:0.09, G:0.08, T:0.36
Consensus pattern (89 bp):
AAATTCTTCTATTAAAATTATTGGTATAAAAATTTAAAATTAAAAAATATTCACTTAATAGCCAT
GTGATAAAAAATTGACATCGTAAT
Found at i:3278667 original size:43 final size:43
Alignment explanation
Indices: 3278529--3278667 Score: 131
Period size: 43 Copynumber: 3.2 Consensus size: 43
3278519 AATTATTGGT
3278529 ATAAAAATTTAAAATTAAAAAATATTCACTTAATAGCCATGTG
1 ATAAAAATTTAAAATTAAAAAATATTCACTTAATAGCCATGTG
* * * * * ***
3278572 ATAAAAAATTGACATCGTAATAAATTCTTCTA-TTAA-AATTAT-TGG
1 ATAAAAATTTAAAAT--TAA-AAAATATTC-ACTTAATAGCCATGT-G
3278617 TATAAAAATTTAAAATTAAAAAATATTCACTTAATAGCCATGTG
1 -ATAAAAATTTAAAATTAAAAAATATTCACTTAATAGCCATGTG
3278661 ATAAAAA
1 ATAAAAA
3278668 ATTGACATCG
Statistics
Matches: 71, Mismatches: 16, Indels: 18
0.68 0.15 0.17
Matches are distributed among these distances:
42 1 0.01
43 30 0.42
44 8 0.11
45 8 0.11
46 23 0.32
47 1 0.01
ACGTcount: A:0.50, C:0.09, G:0.07, T:0.34
Consensus pattern (43 bp):
ATAAAAATTTAAAATTAAAAAATATTCACTTAATAGCCATGTG
Found at i:3281501 original size:69 final size:69
Alignment explanation
Indices: 3281415--3281556 Score: 284
Period size: 69 Copynumber: 2.1 Consensus size: 69
3281405 AATTAATCGA
3281415 AAAAGGGCAATGCTTTTGTGTATAAATCCACTCTCACTATAGAGAAACACAAGGTAATCGCATTT
1 AAAAGGGCAATGCTTTTGTGTATAAATCCACTCTCACTATAGAGAAACACAAGGTAATCGCATTT
3281480 ACGT
66 ACGT
3281484 AAAAGGGCAATGCTTTTGTGTATAAATCCACTCTCACTATAGAGAAACACAAGGTAATCGCATTT
1 AAAAGGGCAATGCTTTTGTGTATAAATCCACTCTCACTATAGAGAAACACAAGGTAATCGCATTT
3281549 ACGT
66 ACGT
3281553 AAAA
1 AAAA
3281557 TCACCTAATA
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 73 1.00
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.27
Consensus pattern (69 bp):
AAAAGGGCAATGCTTTTGTGTATAAATCCACTCTCACTATAGAGAAACACAAGGTAATCGCATTT
ACGT
Found at i:3283674 original size:128 final size:128
Alignment explanation
Indices: 3283410--3283666 Score: 491
Period size: 126 Copynumber: 2.0 Consensus size: 128
3283400 AACATTAGCA
3283410 TTTATATATGCTACACACACTGGAAACACATTCAAATAGAAATAATTCTCTCTTAATACATTTCC
1 TTTATATATGCTACACACACTGGAAACACATTCAAATAGAAATAATTCTCTCTTAATACATTTCC
3283475 TCCATGTAACTTAAACTCGACTGTGAGTGTTGGATACAACTCCGTTAAATTTTTTTCAAAGTT
66 TCCATGTAACTTAAACTCGACTGTGAGTGTTGGATACAACTCCGTTAAATTTTTTTCAAAGTT
*
3283538 TTTATATATGCTACACACACTGGAAACACATTTAAATAGAAATAA-T-TCTCTTAATACATTTCC
1 TTTATATATGCTACACACACTGGAAACACATTCAAATAGAAATAATTCTCTCTTAATACATTTCC
3283601 TCCATGTAACTTAAACTCGACTGTGAGTGTTGGATACAACTCCGTTAAATTTTTTTCAAAGTT
66 TCCATGTAACTTAAACTCGACTGTGAGTGTTGGATACAACTCCGTTAAATTTTTTTCAAAGTT
3283664 TTT
1 TTT
3283667 CCATATATTT
Statistics
Matches: 128, Mismatches: 1, Indels: 2
0.98 0.01 0.02
Matches are distributed among these distances:
126 83 0.65
127 1 0.01
128 44 0.34
ACGTcount: A:0.33, C:0.19, G:0.11, T:0.37
Consensus pattern (128 bp):
TTTATATATGCTACACACACTGGAAACACATTCAAATAGAAATAATTCTCTCTTAATACATTTCC
TCCATGTAACTTAAACTCGACTGTGAGTGTTGGATACAACTCCGTTAAATTTTTTTCAAAGTT
Found at i:3289055 original size:27 final size:26
Alignment explanation
Indices: 3289002--3289058 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 26
3288992 AATTTTAAAA
* * *
3289002 TATTTTTAAAATACTTTTTTATTTTT
1 TATTTTTAAAATAATTTTTGATGTTT
*
3289028 TATTTTTAAAATAAATTTTTGGTGTTT
1 TATTTTTAAAAT-AATTTTTGATGTTT
3289055 TATT
1 TATT
3289059 AAAAAAATAG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 12 0.46
27 14 0.54
ACGTcount: A:0.28, C:0.02, G:0.05, T:0.65
Consensus pattern (26 bp):
TATTTTTAAAATAATTTTTGATGTTT
Found at i:3291666 original size:24 final size:24
Alignment explanation
Indices: 3291639--3291685 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
3291629 AATTATCAAT
3291639 TTGAATTCTAAATATTAACGGGTA
1 TTGAATTCTAAATATTAACGGGTA
* * *
3291663 TTGAATTTTAAATTTTAATGGGT
1 TTGAATTCTAAATATTAACGGGT
3291686 TTGGACTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.04, G:0.17, T:0.45
Consensus pattern (24 bp):
TTGAATTCTAAATATTAACGGGTA
Found at i:3293180 original size:16 final size:16
Alignment explanation
Indices: 3293156--3293187 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
3293146 ATTACTTCTC
3293156 AATCCGATTCATCGAT
1 AATCCGATTCATCGAT
*
3293172 AATCTGATTCATCGAT
1 AATCCGATTCATCGAT
3293188 CTAATCTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.34
Consensus pattern (16 bp):
AATCCGATTCATCGAT
Found at i:3293678 original size:13 final size:14
Alignment explanation
Indices: 3293630--3293689 Score: 61
Period size: 14 Copynumber: 4.3 Consensus size: 14
3293620 TAGATCAATT
* *
3293630 TAAAATTTCATATA
1 TAAAATTACACATA
*
3293644 TAAAATTACACAAAA
1 TAAAATTACAC-ATA
3293659 TTAAAATTA-ACATA
1 -TAAAATTACACATA
3293673 TAAAATTACACAT-
1 TAAAATTACACATA
3293686 TAAA
1 TAAA
3293690 CCCAAATTCA
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
13 12 0.31
14 15 0.38
15 4 0.10
16 8 0.21
ACGTcount: A:0.58, C:0.10, G:0.00, T:0.32
Consensus pattern (14 bp):
TAAAATTACACATA
Found at i:3294039 original size:31 final size:30
Alignment explanation
Indices: 3293983--3294043 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 30
3293973 TAAAATATCG
*
3293983 ATTTTGATTTAGTATAATTATATATATGAA
1 ATTTTGATTTAGTATAAATATATATATGAA
*
3294013 ATTTTGATTGTAGTTTAAATATATATATGAA
1 ATTTTGATT-TAGTATAAATATATATATGAA
3294044 GCTTTAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
30 9 0.32
31 19 0.68
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.49
Consensus pattern (30 bp):
ATTTTGATTTAGTATAAATATATATATGAA
Found at i:3296033 original size:22 final size:22
Alignment explanation
Indices: 3296005--3296048 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
3295995 TTAATGATAG
3296005 ACATTTATGTCAAGACTGAAAT
1 ACATTTATGTCAAGACTGAAAT
*
3296027 ACATTTATGTCAAGATTGAAAT
1 ACATTTATGTCAAGACTGAAAT
3296049 TTCAAAATTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.34
Consensus pattern (22 bp):
ACATTTATGTCAAGACTGAAAT
Found at i:3305804 original size:29 final size:28
Alignment explanation
Indices: 3305756--3305810 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
3305746 TTTAATTTTG
*
3305756 AAATTGAGCAAATTAGTCCCTATCAAAA
1 AAATTGAGCAAATTAATCCCTATCAAAA
* *
3305784 AAATTGGAGCAATTTAATCCCTGTCAA
1 AAATT-GAGCAAATTAATCCCTATCAA
3305811 TTTTGAAAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 5 0.22
29 18 0.78
ACGTcount: A:0.42, C:0.18, G:0.13, T:0.27
Consensus pattern (28 bp):
AAATTGAGCAAATTAATCCCTATCAAAA
Found at i:3320066 original size:10 final size:10
Alignment explanation
Indices: 3320053--3320080 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
3320043 GAGAGTTCGA
3320053 GAAAATGAAG
1 GAAAATGAAG
3320063 GAAAATGAAG
1 GAAAATGAAG
3320073 GAAAATGA
1 GAAAATGA
3320081 GAAATATTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.61, C:0.00, G:0.29, T:0.11
Consensus pattern (10 bp):
GAAAATGAAG
Found at i:3322278 original size:48 final size:48
Alignment explanation
Indices: 3322226--3322929 Score: 464
Period size: 48 Copynumber: 14.7 Consensus size: 48
3322216 GGATGGAGGA
* * * *
3322226 GGTGGGGACTTGTAATAGTAGGGTGGTGGTGGAGAGTGGACTGGTGGT
1 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAGAGTGGACTGGTGGT
* * * * *
3322274 GGTGGAGATTTGTAGTAGTAGGGAGGAGGTGGAGA-TGGTGA-TGGGGGA
1 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAGAGT-G-GACTGGTGGT
* * * *
3322322 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGTGA-TGGAGATGGGGGA
1 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAGAGTGGA-CTGGTGGT
* * * *
3322370 GGTGGGGACTTGTAATAGTAGGGTGGTGGTGGAGAGTGGACTGGTGGT
1 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAGAGTGGACTGGTGGT
* * * * *
3322418 GGTGGAGATTTGTAGTAGTAGGGAGGAGGTGGAGA-TGGTGA-TGGGGGA
1 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAGAGT-G-GACTGGTGGT
*
3322466 GGTGGAGATTTGTAGTAGTATGGTGGTGGT-GATG-GT-GA-TGGTGGA
1 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGA-GAGTGGACTGGTGGT
* * * * * * * ** ** *
3322511 GGAGGGGAGTTGTAGTGGTAAGTTGGTGCTGGAGCCTTCACTGGAGGT
1 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAGAGTGGACTGGTGGT
* * * * * * *
3322559 GGTGGTGATTTGTAATAGTATGGTGGTGGAGGGGAATGAATTGGTGGT
1 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAGAGTGGACTGGTGGT
* * * *
3322607 GGTGGGGATTTGTAATGGTATGGCGGTGGTGGAGAGTGGACTGGTGGT
1 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAGAGTGGACTGGTGGT
3322655 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAGAGTGGACTGGTGGT
1 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAGAGTGGACTGGTGGT
* * * * * * * * *
3322703 GGTGGGGACTTGTAGTTGTAAGGAGGAGGCGGAGA-TGAAGAC-GGGGGA
1 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAGAGTG--GACTGGTGGT
* * * * * *
3322751 GGAGGGGATTTGTAGTAGTATGGAGGTGGTGGTGA-TGGAGATGGAGGT
1 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAGAGTGGA-CTGGTGGT
* * * * * *
3322799 GGTGGGGATTTGTAGTAGTAAGGAGGAGGAGGAGA-TGGTGA-TGGTGGA
1 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAGAGT-G-GACTGGTGGT
* * * * * * * ** ** ** *
3322847 GGAGGGGAGTTCTAGTGGTACGTTGGTCCTGGAGCCTTCACTGGAGGT
1 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAGAGTGGACTGGTGGT
* *
3322895 GGTGGTGATTTGTAGTAGTATGGTGGGGGTGGAGA
1 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAGA
3322930 CTTGTAGTAA
Statistics
Matches: 513, Mismatches: 122, Indels: 42
0.76 0.18 0.06
Matches are distributed among these distances:
45 32 0.06
46 7 0.01
47 9 0.02
48 450 0.88
49 13 0.03
50 2 0.00
ACGTcount: A:0.19, C:0.03, G:0.50, T:0.27
Consensus pattern (48 bp):
GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAGAGTGGACTGGTGGT
Found at i:3322383 original size:144 final size:144
Alignment explanation
Indices: 3322190--3322818 Score: 698
Period size: 144 Copynumber: 4.4 Consensus size: 144
3322180 AGGTGAGTGA
* * * * * *
3322190 TAGTAGTATGGGGGAGGGGGTGAAGGGGATGGAGGAGGTGGGGACTTGTAATAGTAGGGTGGTGG
1 TAGTAGTATGGTGGTGGTGGTGATGGAGATGGAGGAGGTGGGGACTTGTAGTAGTAGGGTGGTGG
3322255 TGGAGAGTGGACTGGTGGTGGTGGAGATTTGTAGTAGTAGGGAGGAGGTGGAGATGGTGATGGGG
66 TGGAGAGTGGACTGGTGGTGGTGGAGATTTGTAGTAGTAGGGAGGAGGTGGAGATGGTGATGGGG
3322320 GAGGTGGAGATTTG
131 GAGGTGGAGATTTG
* *
3322334 TAGTAGTATGGTGGTGGTGGTGATGGAGATGGGGGAGGTGGGGACTTGTAATAGTAGGGTGGTGG
1 TAGTAGTATGGTGGTGGTGGTGATGGAGATGGAGGAGGTGGGGACTTGTAGTAGTAGGGTGGTGG
3322399 TGGAGAGTGGACTGGTGGTGGTGGAGATTTGTAGTAGTAGGGAGGAGGTGGAGATGGTGATGGGG
66 TGGAGAGTGGACTGGTGGTGGTGGAGATTTGTAGTAGTAGGGAGGAGGTGGAGATGGTGATGGGG
3322464 GAGGTGGAGATTTG
131 GAGGTGGAGATTTG
* * * * * * * *
3322478 TAGTAGTA---TGGTGGTGGTGATGGTGATGGTGGAGGAGGGGAGTTGTAGTGGTAAGTTGGTGC
1 TAGTAGTATGGTGGTGGTGGTGATGGAGATGGAGGAGGTGGGGACTTGTAGTAGTAGGGTGGTGG
** ** * * * * *
3322540 TGGAGCCTTCACTGGAGGTGGTGGTGATTTGTAATAGTATGGTGGTGGAGG-GGA-AT-G-AATT
66 TGGAGAGTGGACTGGTGGTGGTGGAGATTTGTAGTAGTA--G-GGAGGAGGTGGAGATGGTGA-T
* * *
3322601 GGTGGTGGTGGGGATTTG
127 GGGGGAGGTGGAGATTTG
* * * * * * * * * *
3322619 TAATGGTATGGCGGTGGTGGAGAGTGGA-CTGGTGGTGGTGGAGATTTGTAGTAGTATGGTGGTG
1 TAGTAGTATGGTGGTGGTGGTGA-TGGAGATGGAGGAGGTGGGGACTTGTAGTAGTAGGGTGGTG
* * * * * ** *
3322683 GTGGAGAGTGGACTGGTGGTGGTGGGGACTTGTAGTTGTAAGGAGGAGGCGGAGATGAAGACGGG
65 GTGGAGAGTGGACTGGTGGTGGTGGAGATTTGTAGTAGTAGGGAGGAGGTGGAGATGGTGATGGG
* *
3322748 GGAGGAGGGGATTTG
130 GGAGGTGGAGATTTG
* * *
3322763 TAGTAGTATGGAGGTGGTGGTGATGGAGATGGAGGTGGTGGGGATTTGTAGTAGTA
1 TAGTAGTATGGTGGTGGTGGTGATGGAGATGGAGGAGGTGGGGACTTGTAGTAGTA
3322819 AGGAGGAGGA
Statistics
Matches: 407, Mismatches: 65, Indels: 26
0.82 0.13 0.05
Matches are distributed among these distances:
140 1 0.00
141 107 0.26
142 5 0.01
143 10 0.02
144 280 0.69
145 4 0.01
ACGTcount: A:0.20, C:0.02, G:0.51, T:0.27
Consensus pattern (144 bp):
TAGTAGTATGGTGGTGGTGGTGATGGAGATGGAGGAGGTGGGGACTTGTAGTAGTAGGGTGGTGG
TGGAGAGTGGACTGGTGGTGGTGGAGATTTGTAGTAGTAGGGAGGAGGTGGAGATGGTGATGGGG
GAGGTGGAGATTTG
Found at i:3322657 original size:21 final size:21
Alignment explanation
Indices: 3322631--3322707 Score: 84
Period size: 21 Copynumber: 3.4 Consensus size: 21
3322621 ATGGTATGGC
3322631 GGTGGTGGAGAGTGGACTGGT
1 GGTGGTGGAGAGTGGACTGGT
3322652 GGTGGTGGAGATTTGTAGTAGTA-TGGT
1 GGTGGTGGAGA---GT-G--G-ACTGGT
3322679 GGTGGTGGAGAGTGGACTGGT
1 GGTGGTGGAGAGTGGACTGGT
3322700 GGTGGTGG
1 GGTGGTGG
3322708 GGACTTGTAG
Statistics
Matches: 48, Mismatches: 0, Indels: 16
0.75 0.00 0.25
Matches are distributed among these distances:
20 1 0.02
21 24 0.50
23 1 0.02
24 4 0.08
25 1 0.02
27 16 0.33
28 1 0.02
ACGTcount: A:0.14, C:0.03, G:0.55, T:0.29
Consensus pattern (21 bp):
GGTGGTGGAGAGTGGACTGGT
Found at i:3322925 original size:27 final size:27
Alignment explanation
Indices: 3322895--3323001 Score: 120
Period size: 27 Copynumber: 4.2 Consensus size: 27
3322885 CACTGGAGGT
*
3322895 GGTGGTGATTTGTAGTAGTATGGTGGG
1 GGTGGAGATTTGTAGTAGTATGGTGGG
* *
3322922 GGTGGAGACTTGTAGTAATATGGTGGG
1 GGTGGAGATTTGTAGTAGTATGGTGGG
3322949 GGTGGAGA---GT-G--G-ACTGGTGGG
1 GGTGGAGATTTGTAGTAGTA-TGGTGGG
*
3322970 GGTGGAGATTTGTAGTAGTATGGTGGT
1 GGTGGAGATTTGTAGTAGTATGGTGGG
3322997 GGTGG
1 GGTGG
3323002 TGGTGACTTA
Statistics
Matches: 67, Mismatches: 5, Indels: 16
0.76 0.06 0.18
Matches are distributed among these distances:
20 1 0.01
21 15 0.22
23 1 0.01
24 4 0.06
25 1 0.01
27 44 0.66
28 1 0.01
ACGTcount: A:0.17, C:0.02, G:0.50, T:0.31
Consensus pattern (27 bp):
GGTGGAGATTTGTAGTAGTATGGTGGG
Found at i:3323099 original size:66 final size:66
Alignment explanation
Indices: 3322963--3323121 Score: 176
Period size: 66 Copynumber: 2.4 Consensus size: 66
3322953 GAGAGTGGAC
* * * * * * *
3322963 TGGTGGGGGTGGAGATTTGTAGTAGTATGGTGGTGGTGGTGGTGACTTATAAACATAGGTAGGGC
1 TGGTGGTGGCGGAGACTTGTAATAGTATGGTGGAGGAGGTGGTGACTTATAAACATAAGTAGGGC
*
3323028 T
66 A
* * *
3323029 TGGTGGTGGCGGGGACTTGTAATAGTATGGTGGAGGAGGTGGTGACTTGTAAGCATAAGTA-GGC
1 TGGTGGTGGCGGAGACTTGTAATAGTATGGTGGAGGAGGTGGTGACTTATAAACATAAGTAGGGC
3323093 GA
66 -A
* **
3323095 TGGTGGTGGTGGAGAGGTGTAATAGTA
1 TGGTGGTGGCGGAGACTTGTAATAGTA
3323122 AGGAGCTGGA
Statistics
Matches: 77, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
65 3 0.04
66 74 0.96
ACGTcount: A:0.21, C:0.05, G:0.45, T:0.29
Consensus pattern (66 bp):
TGGTGGTGGCGGAGACTTGTAATAGTATGGTGGAGGAGGTGGTGACTTATAAACATAAGTAGGGC
A
Found at i:3323106 original size:36 final size:33
Alignment explanation
Indices: 3322986--3323106 Score: 95
Period size: 36 Copynumber: 3.6 Consensus size: 33
3322976 GATTTGTAGT
* *
3322986 AGTATGGTGGTGGTGGTGGTGACTTATAAACATA
1 AGTAGGGTGGTGGTGGTGGTGACTTGT-AACATA
* * *
3323020 GGTAGGGCTTGGTGGTGGCGGGGACTTGT-A-AT-
1 AGTAGGG--TGGTGGTGGTGGTGACTTGTAACATA
* * *
3323052 AGTATGGTGGAGGAGGTGGTGACTTGTAAGCATA
1 AGTAGGGTGGTGGTGGTGGTGACTTGTAA-CATA
3323086 AGTAGGCGATGGTGGTGGTGG
1 AGTAGG-G-TGGTGGTGGTGG
3323107 AGAGGTGTAA
Statistics
Matches: 65, Mismatches: 14, Indels: 14
0.70 0.15 0.15
Matches are distributed among these distances:
30 16 0.25
31 1 0.02
32 5 0.08
33 4 0.06
34 11 0.17
35 1 0.02
36 27 0.42
ACGTcount: A:0.21, C:0.07, G:0.45, T:0.28
Consensus pattern (33 bp):
AGTAGGGTGGTGGTGGTGGTGACTTGTAACATA
Found at i:3324294 original size:27 final size:27
Alignment explanation
Indices: 3324264--3324349 Score: 76
Period size: 27 Copynumber: 3.4 Consensus size: 27
3324254 ATGCGGAGGA
*
3324264 GGTGGCGGAGACGTATAGTAGTAAGGT
1 GGTGGTGGAGACGTATAGTAGTAAGGT
* *
3324291 GGTGG-AG-GA-G-ATGGT-G-AAGGT
1 GGTGGTGGAGACGTATAGTAGTAAGGT
* * *
3324312 GGTGGTGGAGACTTGTAGTAGTAAGGA
1 GGTGGTGGAGACGTATAGTAGTAAGGT
3324339 GGTGGTGGAGA
1 GGTGGTGGAGA
3324350 TGGTGATGGT
Statistics
Matches: 46, Mismatches: 7, Indels: 12
0.71 0.11 0.18
Matches are distributed among these distances:
21 10 0.22
22 2 0.04
23 6 0.13
24 1 0.02
25 5 0.11
26 2 0.04
27 20 0.43
ACGTcount: A:0.24, C:0.03, G:0.50, T:0.22
Consensus pattern (27 bp):
GGTGGTGGAGACGTATAGTAGTAAGGT
Found at i:3324411 original size:24 final size:27
Alignment explanation
Indices: 3324354--3324417 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 27
3324344 TGGAGATGGT
*
3324354 GATGGTGGTGGGGGAGACTTATAATAG
1 GATGGTGGTGGGGGAGACTTACAATAG
* *
3324381 TATGGTGGTGGGGGAGACTT-CACT-G
1 GATGGTGGTGGGGGAGACTTACAATAG
3324406 GA-GGTGGTGGGG
1 GATGGTGGTGGGG
3324418 ACTTGTAGTA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
24 10 0.30
25 2 0.06
26 2 0.06
27 19 0.58
ACGTcount: A:0.19, C:0.06, G:0.50, T:0.25
Consensus pattern (27 bp):
GATGGTGGTGGGGGAGACTTACAATAG
Found at i:3324681 original size:27 final size:26
Alignment explanation
Indices: 3324651--3324736 Score: 84
Period size: 27 Copynumber: 3.2 Consensus size: 26
3324641 GGACGGTGGT
3324651 GGTGGAGATTTGTAGTAATATGGAGGA
1 GGTGGAGA-TTGTAGTAATATGGAGGA
* * *
3324678 GGTGGAGA-TGGAGATGGAGATGGAGGA
1 GGTGGAGATTGTAG-T-AATATGGAGGA
* *
3324705 GGTGGGGACTTGTAGTAGTATGGAGGA
1 GGTGGAGA-TTGTAGTAATATGGAGGA
3324732 GGTGG
1 GGTGG
3324737 GGAAGGAGAT
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
25 4 0.09
26 1 0.02
27 37 0.79
28 1 0.02
29 4 0.09
ACGTcount: A:0.26, C:0.01, G:0.50, T:0.23
Consensus pattern (26 bp):
GGTGGAGATTGTAGTAATATGGAGGA
Found at i:3324982 original size:144 final size:144
Alignment explanation
Indices: 3324261--3325000 Score: 712
Period size: 144 Copynumber: 5.1 Consensus size: 144
3324251 GTAATGCGGA
* * * * * * * *
3324261 GGAGGTGGCGGAGACGTATAGTAGTAAGGTGGTGGAGGAGATGGTGAAGGTGGTGGTGGAGACTT
1 GGAGGTGGTGGAGACTTGTAGTAGTAAGGTGGTGGTGGAGATGGAGATGATGGTGGTGGAGATTT
* * * * * *
3324326 GTAGTAGTAAGGAGGTGGTGGAGATGGTGATGGTGGTGGGGGAGACTTATAATAGTATGGTGGTG
66 GTAGTAGTAAGGAGGAGGTGGTGATGGGGATGGTGGTGGTGGAGACTTATAATAGTATGGAGGAG
* * ** *
3324391 GGGGAGACTTCA-CT
131 GAGGTGA-TGGAGAT
* * * *
3324405 GGAGGTGGTGGGGACTTGTAGTAGTAAGGTGGTGGTGGAGATGGTGAGGGTGGTGGTGGAGATTT
1 GGAGGTGGTGGAGACTTGTAGTAGTAAGGTGGTGGTGGAGATGGAGATGATGGTGGTGGAGATTT
* * * * * *
3324470 GTAGTAGTAAGGAGGTGGTGGAGATGGTGATGGTGGTGGTGGAGACTTATAATAGTAAGGTGGGG
66 GTAGTAGTAAGGAGGAGGTGGTGATGGGGATGGTGGTGGTGGAGACTTATAATAGTATGGAGGAG
* * *
3324535 GTGGTGAAGGAGAA
131 GAGGTGATGGAGAT
* * * * * * * *
3324549 GGTGGGGGGGGAGACTTGTAGTAGTAAGGTGGTGGTGGGGAAGGAGATGGA-GGCGGCGGGGATT
1 GGAGGTGGTGGAGACTTGTAGTAGTAAGGTGGTGGTGGAGATGGAGAT-GATGGTGGTGGAGATT
* * * * *
3324613 TGTAGTAGTAAGGAGGAGGTGGTGATGGGGACGGTGGTGGTGGAGATTTGTAGTAATATGGAGGA
65 TGTAGTAGTAAGGAGGAGGTGGTGATGGGGATGGTGGTGGTGGAGACTTATAATAGTATGGAGGA
*
3324678 GGTGGAGATGGAGATGGAGAT
130 ----G-GA-GGTGATGGAGAT
* * * * * * * *
3324699 GGAGGAGGTGGGGACTTGTAGTAGTATGGAGGAGGTGGGGAAGGAGATGGA-GGTGGTGGGGATT
1 GGAGGTGGTGGAGACTTGTAGTAGTAAGGTGGTGGTGGAGATGGAGAT-GATGGTGGTGGAGATT
* * * * * *
3324763 TGTAGTAATAAGGAGGAGGTGGTGACGGGGACGGAGGTGGTGGAGACTTATAGTAATATGGAGGA
65 TGTAGTAGTAAGGAGGAGGTGGTGATGGGGATGGTGGTGGTGGAGACTTATAATAGTATGGAGGA
* * *
3324828 GGTGGGGATGGGGAT
130 GGAGGTGATGGAGAT
* * * * * *
3324843 GGAGGTGGTGGAGACTTGTAGTAGTACGGGGGAGGTGGTGATGGGGATGATGGTGGTGGAGACTT
1 GGAGGTGGTGGAGACTTGTAGTAGTAAGGTGGTGGTGGAGATGGAGATGATGGTGGTGGAGATTT
* * *
3324908 GTAGTAGTATGGAGGAGGTGGTGACGGGGATGGTGGTGGAGGAGACTTATAATAGTATGGAGGAG
66 GTAGTAGTAAGGAGGAGGTGGTGATGGGGATGGTGGTGGTGGAGACTTATAATAGTATGGAGGAG
*
3324973 GAGGTGATGGAGAC
131 GAGGTGATGGAGAT
*
3324987 GGTGGTGGTGGAGA
1 GGAGGTGGTGGAGA
3325001 TTTATAGTGG
Statistics
Matches: 505, Mismatches: 82, Indels: 18
0.83 0.14 0.03
Matches are distributed among these distances:
143 3 0.01
144 373 0.74
145 2 0.00
146 1 0.00
148 1 0.00
149 1 0.00
150 124 0.25
ACGTcount: A:0.23, C:0.03, G:0.51, T:0.23
Consensus pattern (144 bp):
GGAGGTGGTGGAGACTTGTAGTAGTAAGGTGGTGGTGGAGATGGAGATGATGGTGGTGGAGATTT
GTAGTAGTAAGGAGGAGGTGGTGATGGGGATGGTGGTGGTGGAGACTTATAATAGTATGGAGGAG
GAGGTGATGGAGAT
Found at i:3325006 original size:48 final size:48
Alignment explanation
Indices: 3324205--3325018 Score: 599
Period size: 48 Copynumber: 16.8 Consensus size: 48
3324195 GCGGGATGAT
* * * * * ** *
3324205 ATGGAGTTGGAGGAGGTGGAGATTTGTAGTAGTATGGTGGAGAGACGTA
1 ATGGAGATGGTGGTGGTGGAGACTTGTAGTAGTATGGAGGAG-GTGGTG
* * * * * * * * *
3324254 ATGCG-GA-GGAGGTGGCGGAGACGTATAGTAGTAAGGTGGTGGAGGAG
1 ATG-GAGATGGTGGTGGTGGAGACTTGTAGTAGTATGGAGGAGGTGGTG
* * * * *
3324301 ATGGTGAAGGTGGTGGTGGAGACTTGTAGTAGTAAGGAGGTGGTGGAG
1 ATGGAGATGGTGGTGGTGGAGACTTGTAGTAGTATGGAGGAGGTGGTG
* * * * * * * *
3324349 ATGGTGATGGTGGTGGGGGAGACTTATAATAGTATGGTGGTGGGGGAG
1 ATGGAGATGGTGGTGGTGGAGACTTGTAGTAGTATGGAGGAGGTGGTG
** * * * * * * *
3324397 ACTTCA-CTGGAGGTGGTGGGGACTTGTAGTAGTAAGGTGGTGGTGGAG
1 A-TGGAGATGGTGGTGGTGGAGACTTGTAGTAGTATGGAGGAGGTGGTG
* * * * * *
3324445 ATGGTGAGGGTGGTGGTGGAGATTTGTAGTAGTAAGGAGGTGGTGGAG
1 ATGGAGATGGTGGTGGTGGAGACTTGTAGTAGTATGGAGGAGGTGGTG
* * * * * *
3324493 ATGGTGATGGTGGTGGTGGAGACTTATAATAGTAAGGTGGGGGTGGTG
1 ATGGAGATGGTGGTGGTGGAGACTTGTAGTAGTATGGAGGAGGTGGTG
* * * * * * * *
3324541 AAGGAGAAGGTGGGGGGGGAGACTTGTAGTAGTAAGGTGGTGGTGGGG
1 ATGGAGATGGTGGTGGTGGAGACTTGTAGTAGTATGGAGGAGGTGGTG
* * * * * * *
3324589 AAGGAGATGGAGGCGGCGGGGATTTGTAGTAGTAAGGAGGAGGTGGTG
1 ATGGAGATGGTGGTGGTGGAGACTTGTAGTAGTATGGAGGAGGTGGTG
* * * *
3324637 ATGGGGACGGTGGTGGTGGAGATTTGTAGTAATATGGAGGAGGTGGAGATGGAG
1 ATGGAGATGGTGGTGGTGGAGACTTGTAGTAGTATGGAGGAGGT-G-G-T---G
* * * *
3324691 ATGGAGATGGAGGAGGTGGGGACTTGTAGTAGTATGGAGGAGGTGGGG
1 ATGGAGATGGTGGTGGTGGAGACTTGTAGTAGTATGGAGGAGGTGGTG
* * * * * *
3324739 AAGGAGATGGAGGTGGTGGGGATTTGTAGTAATAAGGAGGAGGTGGTG
1 ATGGAGATGGTGGTGGTGGAGACTTGTAGTAGTATGGAGGAGGTGGTG
* * * * * * *
3324787 ACGGGGACGGAGGTGGTGGAGACTTATAGTAATATGGAGGAGGTGGGG
1 ATGGAGATGGTGGTGGTGGAGACTTGTAGTAGTATGGAGGAGGTGGTG
* * * *
3324835 ATGGGGATGGAGGTGGTGGAGACTTGTAGTAGTACGGGGGAGGTGGTG
1 ATGGAGATGGTGGTGGTGGAGACTTGTAGTAGTATGGAGGAGGTGGTG
* *
3324883 ATGGGGATGATGGTGGTGGAGACTTGTAGTAGTATGGAGGAGGTGGTG
1 ATGGAGATGGTGGTGGTGGAGACTTGTAGTAGTATGGAGGAGGTGGTG
* * * * * *
3324931 ACGGGGATGGTGGTGGAGGAGACTTATAATAGTATGGAGGAGGAGGTG
1 ATGGAGATGGTGGTGGTGGAGACTTGTAGTAGTATGGAGGAGGTGGTG
* * * *
3324979 ATGGAGACGGTGGTGGTGGAGATTTATAGTGGTATGGAGG
1 ATGGAGATGGTGGTGGTGGAGACTTGTAGTAGTATGGAGG
3325019 GTTCACTTCA
Statistics
Matches: 630, Mismatches: 124, Indels: 23
0.81 0.16 0.03
Matches are distributed among these distances:
46 1 0.00
47 9 0.01
48 571 0.91
49 6 0.01
50 2 0.00
51 1 0.00
52 1 0.00
53 1 0.00
54 38 0.06
ACGTcount: A:0.23, C:0.03, G:0.50, T:0.24
Consensus pattern (48 bp):
ATGGAGATGGTGGTGGTGGAGACTTGTAGTAGTATGGAGGAGGTGGTG
Found at i:3325090 original size:48 final size:48
Alignment explanation
Indices: 3325038--3325173 Score: 155
Period size: 48 Copynumber: 2.8 Consensus size: 48
3325028 ATGTTTCGGT
* * * *
3325038 GGAGGTGGTGGTGACTTGTACTCATAAGGTGGTGGTGGAGAAGGTGAA
1 GGAGGTGGTGGAGACTTATACTCATAAGGTGGTGGAGGAGAAGGAGAA
* * * * * *
3325086 GGAGGTGGTGGAGATTTATACACGTATGGTGGTGGGGGAGATGGAGAA
1 GGAGGTGGTGGAGACTTATACTCATAAGGTGGTGGAGGAGAAGGAGAA
* * *
3325134 GGTGGTGGAGGCGACTTATACTCATAAGGTGGTGGAGGAG
1 GGAGGTGGTGGAGACTTATACTCATAAGGTGGTGGAGGAG
3325174 GTGAAGAGTA
Statistics
Matches: 71, Mismatches: 17, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
48 71 1.00
ACGTcount: A:0.24, C:0.07, G:0.46, T:0.24
Consensus pattern (48 bp):
GGAGGTGGTGGAGACTTATACTCATAAGGTGGTGGAGGAGAAGGAGAA
Found at i:3325622 original size:5 final size:5
Alignment explanation
Indices: 3325609--3325644 Score: 63
Period size: 5 Copynumber: 7.2 Consensus size: 5
3325599 TGTTATAATC
*
3325609 TTTAA TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT T
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT T
3325645 AAAATTTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTAT
Found at i:3344090 original size:16 final size:17
Alignment explanation
Indices: 3344061--3344093 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
3344051 CAACCCATGA
*
3344061 ACCAAGAACCCCAAACC
1 ACCAAGAACACCAAACC
3344078 ACCAA-AACACCAAACC
1 ACCAAGAACACCAAACC
3344094 CATAAAGCTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.52, C:0.45, G:0.03, T:0.00
Consensus pattern (17 bp):
ACCAAGAACACCAAACC
Found at i:3346413 original size:15 final size:16
Alignment explanation
Indices: 3346393--3346425 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
3346383 ATATAAATAA
*
3346393 ACCTTC-ATTTTTCTT
1 ACCTTCAATTTTTATT
3346408 ACCTTCAATTTTTATT
1 ACCTTCAATTTTTATT
3346424 AC
1 AC
3346426 ATCTTGCTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.21, C:0.24, G:0.00, T:0.55
Consensus pattern (16 bp):
ACCTTCAATTTTTATT
Found at i:3347558 original size:17 final size:17
Alignment explanation
Indices: 3347536--3347570 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
3347526 GTTGGGTCAC
3347536 TCGGCCCAATTAAAAAG
1 TCGGCCCAATTAAAAAG
3347553 TCGGCCCAATTAAAAAG
1 TCGGCCCAATTAAAAAG
3347570 T
1 T
3347571 AGAAAGGGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.40, C:0.23, G:0.17, T:0.20
Consensus pattern (17 bp):
TCGGCCCAATTAAAAAG
Found at i:3350542 original size:14 final size:14
Alignment explanation
Indices: 3350498--3350543 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
3350488 TTAATTAAAT
3350498 TTTAAGGTTTAAG-
1 TTTAAGGTTTAAGA
3350511 TTTAATGGTTTATA-A
1 TTTAA-GGTTTA-AGA
*
3350526 TTTAAGATTTAAGA
1 TTTAAGGTTTAAGA
3350540 TTTA
1 TTTA
3350544 GACTTTTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
13 6 0.21
14 16 0.57
15 6 0.21
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (14 bp):
TTTAAGGTTTAAGA
Found at i:3355021 original size:14 final size:14
Alignment explanation
Indices: 3355002--3355079 Score: 50
Period size: 14 Copynumber: 5.1 Consensus size: 14
3354992 TTGATTGCCA
3355002 GTAAAATATTTTCT
1 GTAAAATATTTTCT
3355016 GTAAAATGA-TTTCT
1 GTAAAAT-ATTTTCT
*
3355030 GGAAAATGTTTTACTTTTCT
1 GTAAAA-----TA-TTTTCT
*
3355050 GTAAAATGATTTACT
1 GTAAAAT-ATTTTCT
*
3355065 GGAAAATATTTTCT
1 GTAAAATATTTTCT
3355079 G
1 G
3355080 GTGTTTGATT
Statistics
Matches: 50, Mismatches: 5, Indels: 18
0.68 0.07 0.25
Matches are distributed among these distances:
14 24 0.48
15 13 0.26
16 1 0.02
18 1 0.02
19 1 0.02
20 10 0.20
ACGTcount: A:0.33, C:0.08, G:0.14, T:0.45
Consensus pattern (14 bp):
GTAAAATATTTTCT
Found at i:3355050 original size:20 final size:20
Alignment explanation
Indices: 3355025--3355064 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
3355015 TGTAAAATGA
*
3355025 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
3355045 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
3355065 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:3355053 original size:34 final size:35
Alignment explanation
Indices: 3355010--3355076 Score: 118
Period size: 34 Copynumber: 1.9 Consensus size: 35
3355000 CAGTAAAATA
*
3355010 TTTTCTGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCTGTAAAATGATTTACTGGAAAATATTTTAC
3355044 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
3355077 CTGGTGTTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 18 0.58
35 13 0.42
ACGTcount: A:0.31, C:0.07, G:0.13, T:0.48
Consensus pattern (35 bp):
TTTTCTGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:3359806 original size:218 final size:218
Alignment explanation
Indices: 3359426--3359867 Score: 805
Period size: 218 Copynumber: 2.0 Consensus size: 218
3359416 TACTAGTGCG
**
3359426 TTTCTTTTGGAGTTTTGAGGAAAAATCATTTACCAAATATATCAACAAAACTACTCATACTACAG
1 TTTCTTTTGGAGTTTCAAGGAAAAATCATTTACCAAATATATCAACAAAACTACTCATACTACAG
3359491 TGTTTTTATGTCAACTACAACTAGTTTCATGTGACCTGTTTTTATAAGATTTGTCCTACTCATAT
66 TGTTTTTATGTCAACTACAACTAGTTTCATGTGACCTGTTTTTATAAGATTTGTCCTACTCATAT
*
3359556 GCCATCTTTGGCTTACTGTCTATATATTGCAGTTGGAGATTCCAAAACAGTTACTTGATCCAAAT
131 GCCATCTTTGGCTTACTGTCTATATATTGCAGTTGGAGATTCCAAAACAATTACTTGATCCAAAT
*
3359621 TTGTTCAATGCTTGGATGATGCT
196 TTGTTCAATGCTTGGATGATGCC
* *
3359644 TTTCTTTTGGAGTTTCAAGGAAAAATCATTTACCAAATATATCGACAAAATTACTCATACTACAG
1 TTTCTTTTGGAGTTTCAAGGAAAAATCATTTACCAAATATATCAACAAAACTACTCATACTACAG
*
3359709 TGTTTTTATGTCAACTGCAACTAGTTTCATGTGACCTGTTTTTATAAGATTTGTCCTACTCATAT
66 TGTTTTTATGTCAACTACAACTAGTTTCATGTGACCTGTTTTTATAAGATTTGTCCTACTCATAT
3359774 GCCATCTTTGGCTTACTGTCTATACT-TTGCAGTTGGAGATTCCAAAACAATTACTTGATCCAAA
131 GCCATCTTTGGCTTACTGTCTATA-TATTGCAGTTGGAGATTCCAAAACAATTACTTGATCCAAA
3359838 TTTGTTCAATGCTTGGATGATGCC
195 TTTGTTCAATGCTTGGATGATGCC
3359862 TTTCTT
1 TTTCTT
3359868 AAATGTTTTG
Statistics
Matches: 216, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
218 215 1.00
219 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.39
Consensus pattern (218 bp):
TTTCTTTTGGAGTTTCAAGGAAAAATCATTTACCAAATATATCAACAAAACTACTCATACTACAG
TGTTTTTATGTCAACTACAACTAGTTTCATGTGACCTGTTTTTATAAGATTTGTCCTACTCATAT
GCCATCTTTGGCTTACTGTCTATATATTGCAGTTGGAGATTCCAAAACAATTACTTGATCCAAAT
TTGTTCAATGCTTGGATGATGCC
Found at i:3382296 original size:6 final size:6
Alignment explanation
Indices: 3382280--3382311 Score: 55
Period size: 6 Copynumber: 5.2 Consensus size: 6
3382270 ATTAAATAAT
3382280 TATTATA TATTTA TATTTA TATTTA TATTTA T
1 TATT-TA TATTTA TATTTA TATTTA TATTTA T
3382312 GTTAAATCAC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 21 0.84
7 4 0.16
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (6 bp):
TATTTA
Found at i:3382434 original size:26 final size:27
Alignment explanation
Indices: 3382405--3382470 Score: 64
Period size: 29 Copynumber: 2.4 Consensus size: 27
3382395 AAATTTTAAA
*
3382405 ATTTATATTTAATACAAT-AAATATTT
1 ATTTATATTTAATACAATAAAACATTT
* *
3382431 ATTTGTACTTTTTAATATAATAAAACATTT
1 A-TT-TA-TATTTAATACAATAAAACATTT
3382461 A-TTATATTTA
1 ATTTATATTTA
3382471 TGGTAATGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
26 6 0.19
27 4 0.12
28 3 0.09
29 11 0.34
30 8 0.25
ACGTcount: A:0.42, C:0.05, G:0.02, T:0.52
Consensus pattern (27 bp):
ATTTATATTTAATACAATAAAACATTT
Found at i:3383201 original size:50 final size:50
Alignment explanation
Indices: 3383130--3383361 Score: 268
Period size: 50 Copynumber: 4.6 Consensus size: 50
3383120 CCAGGGCATA
* * ** *
3383130 TAAGACCATGTCTGGGACATGGCGTTGGCACTGAGATGAGAGGTCCCATA
1 TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGACATCCCATG
* ** **
3383180 TAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCCG
1 TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGACATCCCATG
* * * *
3383230 TAAGACCATGGCTGCGACATGGCATGGGCACCGACATGAGTACATCCCATG
1 TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAG-ACATCCCATG
* * *
3383281 TAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACGAGAACATCCCATG
1 TAAGACCATGTCTGGGACATGGCATTGGCACCGA-GATGAG-ACATCCCATG
*
3383332 TAAGACCATGTCTGGGACATGGCTTTGGCA
1 TAAGACCATGTCTGGGACATGGCATTGGCA
3383362 TGTTATGATC
Statistics
Matches: 161, Mismatches: 19, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
50 82 0.51
51 79 0.49
ACGTcount: A:0.26, C:0.25, G:0.30, T:0.20
Consensus pattern (50 bp):
TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGACATCCCATG
Found at i:3383300 original size:26 final size:26
Alignment explanation
Indices: 3383271--3383351 Score: 69
Period size: 26 Copynumber: 3.2 Consensus size: 26
3383261 CGACATGAGT
3383271 ACATCCCATGTAAGACCATGTCTGGG
1 ACATCCCATGTAAGACCATGTCTGGG
** * ** *
3383297 ACATGGCATG--GGCACCATCAC-GAGA
1 ACATCCCATGTAAG-ACCATGTCTG-GG
3383322 ACATCCCATGTAAGACCATGTCTGGG
1 ACATCCCATGTAAGACCATGTCTGGG
3383348 ACAT
1 ACAT
3383352 GGCTTTGGCA
Statistics
Matches: 38, Mismatches: 12, Indels: 10
0.63 0.20 0.17
Matches are distributed among these distances:
24 2 0.05
25 15 0.39
26 19 0.50
27 2 0.05
ACGTcount: A:0.30, C:0.27, G:0.23, T:0.20
Consensus pattern (26 bp):
ACATCCCATGTAAGACCATGTCTGGG
Found at i:3383311 original size:101 final size:100
Alignment explanation
Indices: 3383130--3383312 Score: 258
Period size: 101 Copynumber: 1.8 Consensus size: 100
3383120 CCAGGGCATA
* * * * * * **
3383130 TAAGACCATGTCTGGGACATGGCGTTGGCACTGAGATGAGAGGTCCCATATAAGACCATGTCTGG
1 TAAGACCATGGCTGCGACATGGCATGGGCACCGACATGAGACATCCCATATAAGACCATGTCTGG
* *
3383195 GACATGGCGTTGGCACCGAGATGAGAGGTCCCCCG
66 GACATGGCATGGGCACCGAGATGAGAGGTCCCCCG
*
3383230 TAAGACCATGGCTGCGACATGGCATGGGCACCGACATGAGTACATCCCATGTAAGACCATGTCTG
1 TAAGACCATGGCTGCGACATGGCATGGGCACCGACATGAG-ACATCCCATATAAGACCATGTCTG
3383295 GGACATGGCATGGGCACC
65 GGACATGGCATGGGCACC
3383313 ATCACGAGAA
Statistics
Matches: 71, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
100 34 0.48
101 37 0.52
ACGTcount: A:0.25, C:0.25, G:0.31, T:0.19
Consensus pattern (100 bp):
TAAGACCATGGCTGCGACATGGCATGGGCACCGACATGAGACATCCCATATAAGACCATGTCTGG
GACATGGCATGGGCACCGAGATGAGAGGTCCCCCG
Found at i:3390244 original size:50 final size:50
Alignment explanation
Indices: 3390133--3390331 Score: 254
Period size: 50 Copynumber: 3.8 Consensus size: 50
3390123 ATTTGGGTAA
3390133 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGGTCATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC--GA-G--ATG
* *
3390189 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * * *
3390239 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* *
3390289 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
3390332 TGTTATGATC
Statistics
Matches: 129, Mismatches: 13, Indels: 7
0.87 0.09 0.05
Matches are distributed among these distances:
50 50 0.39
51 34 0.26
52 1 0.01
53 2 0.02
55 2 0.02
56 40 0.31
ACGTcount: A:0.26, C:0.23, G:0.30, T:0.22
Consensus pattern (50 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:3390330 original size:101 final size:104
Alignment explanation
Indices: 3390145--3390331 Score: 283
Period size: 101 Copynumber: 1.8 Consensus size: 104
3390135 AGATCCCATG
* **
3390145 TAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGGTCATGAGAGGTCCCATGTAAGACCAT
1 TAAGACCATGTCTGGGACATGGCATGGGCATCC-TGA-GTCATGAGACATCCCATGTAAGACCAT
3390210 GTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCTA
64 GTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCTA
3390251 TAAGACCATGTCTGGGACATGGCATGGGCA-CC-GA-T-ATGAGAACATCCCATGTAAGACCATG
1 TAAGACCATGTCTGGGACATGGCATGGGCATCCTGAGTCATGAG-ACATCCCATGTAAGACCATG
*
3390312 TCTGGGACATGGCTTTGGCA
65 TCTGGGACATGGCGTTGGCA
3390332 TGTTATGATC
Statistics
Matches: 76, Mismatches: 4, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
100 5 0.07
101 38 0.50
103 2 0.03
105 2 0.03
106 29 0.38
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.22
Consensus pattern (104 bp):
TAAGACCATGTCTGGGACATGGCATGGGCATCCTGAGTCATGAGACATCCCATGTAAGACCATGT
CTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCTA
Found at i:3401052 original size:17 final size:17
Alignment explanation
Indices: 3401030--3401063 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
3401020 ATCCACTAAT
*
3401030 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
3401047 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
3401064 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:3405691 original size:17 final size:17
Alignment explanation
Indices: 3405669--3405702 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
3405659 ATCCACTAAT
*
3405669 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
3405686 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
3405703 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:3407864 original size:7 final size:7
Alignment explanation
Indices: 3407852--3407883 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
3407842 AGCTTCGGTT
3407852 CAATTTC
1 CAATTTC
3407859 CAATTTC
1 CAATTTC
3407866 CAATTTC
1 CAATTTC
3407873 CAATTTC
1 CAATTTC
3407880 CAAT
1 CAAT
3407884 CACATTGTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.31, C:0.28, G:0.00, T:0.41
Consensus pattern (7 bp):
CAATTTC
Found at i:3413187 original size:12 final size:12
Alignment explanation
Indices: 3413170--3413195 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
3413160 TTAATTTAAA
3413170 ATTAAAATAATT
1 ATTAAAATAATT
3413182 ATTAAAATAATT
1 ATTAAAATAATT
3413194 AT
1 AT
3413196 GTGTTTGAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
ATTAAAATAATT
Found at i:3417683 original size:21 final size:23
Alignment explanation
Indices: 3417657--3417711 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 23
3417647 AGCTTATCAA
3417657 TTTAAATATTATAA-TAAA-ATT
1 TTTAAATATTATAATTAAACATT
*
3417678 TTTAAA-ATAATAATTAAAGCATT
1 TTTAAATATTATAATTAAA-CATT
3417701 TTTAATATATT
1 TTTAA-ATATT
3417712 CAACATATGA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
20 6 0.22
21 10 0.37
23 8 0.30
24 1 0.04
25 2 0.07
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (23 bp):
TTTAAATATTATAATTAAACATT
Found at i:3417685 original size:22 final size:24
Alignment explanation
Indices: 3417660--3417711 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 24
3417650 TTATCAATTT
3417660 AAATATTATAA-TAAA-ATTTTTA
1 AAATATTATAATTAAACATTTTTA
3417682 AAATA--ATAATTAAAGCATTTTTA
1 AAATATTATAATTAAA-CATTTTTA
*
3417705 ATATATT
1 AAATATT
3417712 CAACATATGA
Statistics
Matches: 24, Mismatches: 1, Indels: 7
0.75 0.03 0.22
Matches are distributed among these distances:
20 4 0.17
21 4 0.17
22 5 0.21
23 11 0.46
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (24 bp):
AAATATTATAATTAAACATTTTTA
Found at i:3418296 original size:15 final size:15
Alignment explanation
Indices: 3418276--3418305 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
3418266 TTAAAATTAT
3418276 GTACTTAAATTTTCA
1 GTACTTAAATTTTCA
*
3418291 GTACTTAATTTTTCA
1 GTACTTAAATTTTCA
3418306 ATTTATCAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.13, G:0.07, T:0.50
Consensus pattern (15 bp):
GTACTTAAATTTTCA
Found at i:3418372 original size:12 final size:13
Alignment explanation
Indices: 3418345--3418377 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
3418335 GTTTAAACTA
*
3418345 ATAATTGTAGATT
1 ATAATTATAGATT
3418358 ATAATTATA-ATT
1 ATAATTATAGATT
3418370 ATAATTAT
1 ATAATTAT
3418378 CACAACTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (13 bp):
ATAATTATAGATT
Found at i:3418871 original size:24 final size:23
Alignment explanation
Indices: 3418843--3418903 Score: 79
Period size: 24 Copynumber: 2.6 Consensus size: 23
3418833 TTTCTAGAAG
3418843 ATTTAGTATTTATTAGTATAATAT
1 ATTTAG-ATTTATTAGTATAATAT
* *
3418867 ATTTAGCATTTATTAGTATAGTTT
1 ATTTAG-ATTTATTAGTATAATAT
3418891 ATTT-GATTTATTA
1 ATTTAGATTTATTA
3418904 ATTTAGCCTA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
22 8 0.24
23 1 0.03
24 25 0.74
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.56
Consensus pattern (23 bp):
ATTTAGATTTATTAGTATAATAT
Found at i:3421550 original size:21 final size:21
Alignment explanation
Indices: 3421506--3421546 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
3421496 ATGTGTTTCT
*
3421506 AAAAAGTTTGATTTATCTAATA
1 AAAAAGTTTGATTTA-CAAATA
3421528 AAAAAGTTTGATTTA-AAAT
1 AAAAAGTTTGATTTACAAAT
3421547 TAAATTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
22 15 0.83
ACGTcount: A:0.49, C:0.02, G:0.10, T:0.39
Consensus pattern (21 bp):
AAAAAGTTTGATTTACAAATA
Found at i:3424913 original size:6 final size:6
Alignment explanation
Indices: 3424902--3424932 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
3424892 GTTATGAGGA
3424902 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT T
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT T
3424933 ACAATGCGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTCT
Found at i:3430371 original size:41 final size:41
Alignment explanation
Indices: 3430306--3430386 Score: 110
Period size: 41 Copynumber: 2.0 Consensus size: 41
3430296 ATTATTATAT
*
3430306 TTTTGAGAAATCTTGCATAATTTAATATTATAATTGATTTG
1 TTTTGAGAAATCTTACATAATTTAATATTATAATTGATTTG
* * *
3430347 TTTTGA-AATATCTTACATATTTTAATGTTGTAATTGATTT
1 TTTTGAGAA-ATCTTACATAATTTAATATTATAATTGATTT
3430387 ATTAAAAGTA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 2 0.06
41 33 0.94
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.52
Consensus pattern (41 bp):
TTTTGAGAAATCTTACATAATTTAATATTATAATTGATTTG
Found at i:3439728 original size:55 final size:55
Alignment explanation
Indices: 3439645--3439754 Score: 220
Period size: 55 Copynumber: 2.0 Consensus size: 55
3439635 GCAAGTGATT
3439645 GGAGGAGAATCCAGGAAACTGAAGATAAGGTATGGGAGATTTTGTGGATCAAAAA
1 GGAGGAGAATCCAGGAAACTGAAGATAAGGTATGGGAGATTTTGTGGATCAAAAA
3439700 GGAGGAGAATCCAGGAAACTGAAGATAAGGTATGGGAGATTTTGTGGATCAAAAA
1 GGAGGAGAATCCAGGAAACTGAAGATAAGGTATGGGAGATTTTGTGGATCAAAAA
3439755 CAAGAAATTT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.40, C:0.07, G:0.33, T:0.20
Consensus pattern (55 bp):
GGAGGAGAATCCAGGAAACTGAAGATAAGGTATGGGAGATTTTGTGGATCAAAAA
Found at i:3444538 original size:121 final size:122
Alignment explanation
Indices: 3444305--3444549 Score: 483
Period size: 121 Copynumber: 2.0 Consensus size: 122
3444295 TTTAGAATCT
3444305 AACTTTCCCATTAACATGACAATGTGGTTCCCATGATAAAAAGCAAAAAAATAAAAAAAAATGCT
1 AACTTTCCCATTAACATGACAATGTGGTTCCCATGATAAAAAGCAAAAAAATAAAAAAAAATGCT
3444370 AAAGATGATATTAACTTCTTCTTTTTTTGGGTCTAGGGTGTTAATCTATTAAATGTA
66 AAAGATGATATTAACTTCTTCTTTTTTTGGGTCTAGGGTGTTAATCTATTAAATGTA
3444427 AACTTTCCCATTAACATGACAATGTGGTTCCCATGATAAAAAGCAAAAAAAT-AAAAAAAATGCT
1 AACTTTCCCATTAACATGACAATGTGGTTCCCATGATAAAAAGCAAAAAAATAAAAAAAAATGCT
3444491 AAAGATGATATTAACTTCTTCTTTTTTTGGGTCTAGGGTGTTAATCTATTAAATGTA
66 AAAGATGATATTAACTTCTTCTTTTTTTGGGTCTAGGGTGTTAATCTATTAAATGTA
3444548 AA
1 AA
3444550 AAAAAAATAT
Statistics
Matches: 123, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
121 71 0.58
122 52 0.42
ACGTcount: A:0.40, C:0.13, G:0.14, T:0.33
Consensus pattern (122 bp):
AACTTTCCCATTAACATGACAATGTGGTTCCCATGATAAAAAGCAAAAAAATAAAAAAAAATGCT
AAAGATGATATTAACTTCTTCTTTTTTTGGGTCTAGGGTGTTAATCTATTAAATGTA
Found at i:3449705 original size:58 final size:58
Alignment explanation
Indices: 3449578--3449766 Score: 290
Period size: 58 Copynumber: 3.3 Consensus size: 58
3449568 AACTACACTA
*
3449578 GTTTCAAGTTAAAACATTGTCTCATAGTGATCTCCGCCA-CACATCTTTATAGAAACG
1 GTTTCAAGTTAAAACATAGTCTCATAGTGATCTCCGCCACCACATCTTTATAGAAACG
* * * *
3449635 GTTTCGAGTTAAATCATAGTCTCATAGTGATCTCCGCCACCATATCTTTATCGAAACG
1 GTTTCAAGTTAAAACATAGTCTCATAGTGATCTCCGCCACCACATCTTTATAGAAACG
* * * *
3449693 GTTCCAATTTAAAACATAATCTCATAGTGATCTCCGCCACCACATCTTTATTGAAACG
1 GTTTCAAGTTAAAACATAGTCTCATAGTGATCTCCGCCACCACATCTTTATAGAAACG
3449751 GTTTCAAGTTAAAACA
1 GTTTCAAGTTAAAACA
3449767 CATCTTTATC
Statistics
Matches: 117, Mismatches: 14, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
57 36 0.31
58 81 0.69
ACGTcount: A:0.32, C:0.23, G:0.13, T:0.32
Consensus pattern (58 bp):
GTTTCAAGTTAAAACATAGTCTCATAGTGATCTCCGCCACCACATCTTTATAGAAACG
Found at i:3449774 original size:32 final size:32
Alignment explanation
Indices: 3449733--3449798 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
3449723 TCTCCGCCAC
*
3449733 CACATCTTTATTGAAACGGTTTCAAGTTAAAA
1 CACATCTTTATCGAAACGGTTTCAAGTTAAAA
*
3449765 CACATCTTTATCGAAACGGTTTCAATTTAAAA
1 CACATCTTTATCGAAACGGTTTCAAGTTAAAA
3449797 CA
1 CA
3449799 TAGTCTCATA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.33
Consensus pattern (32 bp):
CACATCTTTATCGAAACGGTTTCAAGTTAAAA
Found at i:3449831 original size:90 final size:90
Alignment explanation
Indices: 3449678--3449856 Score: 322
Period size: 90 Copynumber: 2.0 Consensus size: 90
3449668 CCGCCACCAT
3449678 ATCTTTATCGAAACGGTTCCAATTTAAAACATAATCTCATAGTGATCTCCGCCACCACATCTTTA
1 ATCTTTATCGAAACGGTTCCAATTTAAAACATAATCTCATAGTGATCTCCGCCACCACATCTTTA
*
3449743 TTGAAACGGTTTCAAGTTAAAACAC
66 TCGAAACGGTTTCAAGTTAAAACAC
* *
3449768 ATCTTTATCGAAACGGTTTCAATTTAAAACATAGTCTCATAGTGATCTCCGCCACCACATCTTTA
1 ATCTTTATCGAAACGGTTCCAATTTAAAACATAATCTCATAGTGATCTCCGCCACCACATCTTTA
*
3449833 TCGAAATGGTTTCAAGTTAAAACA
66 TCGAAACGGTTTCAAGTTAAAACA
3449857 TGGTCTCATA
Statistics
Matches: 85, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
90 85 1.00
ACGTcount: A:0.34, C:0.22, G:0.12, T:0.32
Consensus pattern (90 bp):
ATCTTTATCGAAACGGTTCCAATTTAAAACATAATCTCATAGTGATCTCCGCCACCACATCTTTA
TCGAAACGGTTTCAAGTTAAAACAC
Found at i:3449855 original size:58 final size:58
Alignment explanation
Indices: 3449765--3450191 Score: 505
Period size: 58 Copynumber: 7.4 Consensus size: 58
3449755 CAAGTTAAAA
3449765 CACATCTTTATCGAAACGGTTTCAATTTAAAACATAGTCTCATAGTGATCTCCGCCAC
1 CACATCTTTATCGAAACGGTTTCAATTTAAAACATAGTCTCATAGTGATCTCCGCCAC
* * * *
3449823 CACATCTTTATCGAAATGGTTTCAAGTTAAAACATGGTCTCATAGTGATATCCGCCAC
1 CACATCTTTATCGAAACGGTTTCAATTTAAAACATAGTCTCATAGTGATCTCCGCCAC
*
3449881 CACATCTTTAGCGAAACGGTTTCAATTTAAAACATA--CTCATAGTGATCTCCGGCTCCGCCAC
1 CACATCTTTATCGAAACGGTTTCAATTTAAAACATAGTCTCATAGTGA--T----CTCCGCCAC
* ** * * * * ** *
3449943 CGCATCTTTAAAGAAACGGTTCCAAGTTAAAACATGGTTTCA-A-T--T-T---AAAA
1 CACATCTTTATCGAAACGGTTTCAATTTAAAACATAGTCTCATAGTGATCTCCGCCAC
*
3449993 CACATATTTATCGAAACGGTTTCAATTTAAAACATAGTCTCATAGTGATCTCCGCCAC
1 CACATCTTTATCGAAACGGTTTCAATTTAAAACATAGTCTCATAGTGATCTCCGCCAC
* *
3450051 CACATCTTTATCAAAACAGTTTCAATTTAAAACATAGTCTCATAGTGATCTCCGCCAC
1 CACATCTTTATCGAAACGGTTTCAATTTAAAACATAGTCTCATAGTGATCTCCGCCAC
* * * * *
3450109 CACATCTTTATCGACACGGTTTCAGTTTAAAATATAGTCTCATTGTGATCTCTGCCAC
1 CACATCTTTATCGAAACGGTTTCAATTTAAAACATAGTCTCATAGTGATCTCCGCCAC
* *
3450167 CACATCTTTATCAAAATGGTTTCAA
1 CACATCTTTATCGAAACGGTTTCAA
3450192 CCAGACGACA
Statistics
Matches: 309, Mismatches: 44, Indels: 32
0.80 0.11 0.08
Matches are distributed among these distances:
50 35 0.11
51 1 0.00
52 1 0.00
53 1 0.00
54 1 0.00
55 1 0.00
56 10 0.03
58 216 0.70
62 39 0.13
63 1 0.00
64 3 0.01
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.31
Consensus pattern (58 bp):
CACATCTTTATCGAAACGGTTTCAATTTAAAACATAGTCTCATAGTGATCTCCGCCAC
Found at i:3449884 original size:148 final size:148
Alignment explanation
Indices: 3449616--3449914 Score: 472
Period size: 148 Copynumber: 2.0 Consensus size: 148
3449606 GATCTCCGCC
* * *
3449616 ACACATCTTTATAGAAACGGTTTCGAGTTAAATCATAGTCTCATAGTGATCTCCGCCACCATATC
1 ACACATCTTTATAGAAACGGTTTCAAGTTAAAACATAGTCTCATAGTGATCTCCGCCACCACATC
* * **
3449681 TTTATCGAAACGGTTCCAATTTAAAACATAATCTCATAGTGATCTCCGCCACCACATCTTTATTG
66 TTTATCGAAACGGTTCCAAGTTAAAACATAATCTCATAGTGATATCCGCCACCACATCTTTAGCG
3449746 AAACGGTTTCAAGTTAAA
131 AAACGGTTTCAAGTTAAA
* *
3449764 ACACATCTTTATCGAAACGGTTTCAATTTAAAACATAGTCTCATAGTGATCTCCGCCACCACATC
1 ACACATCTTTATAGAAACGGTTTCAAGTTAAAACATAGTCTCATAGTGATCTCCGCCACCACATC
* * **
3449829 TTTATCGAAATGGTTTCAAGTTAAAACATGGTCTCATAGTGATATCCGCCACCACATCTTTAGCG
66 TTTATCGAAACGGTTCCAAGTTAAAACATAATCTCATAGTGATATCCGCCACCACATCTTTAGCG
*
3449894 AAACGGTTTCAATTTAAA
131 AAACGGTTTCAAGTTAAA
3449912 ACA
1 ACA
3449915 TACTCATAGT
Statistics
Matches: 137, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
148 137 1.00
ACGTcount: A:0.33, C:0.23, G:0.13, T:0.31
Consensus pattern (148 bp):
ACACATCTTTATAGAAACGGTTTCAAGTTAAAACATAGTCTCATAGTGATCTCCGCCACCACATC
TTTATCGAAACGGTTCCAAGTTAAAACATAATCTCATAGTGATATCCGCCACCACATCTTTAGCG
AAACGGTTTCAAGTTAAA
Found at i:3454758 original size:13 final size:13
Alignment explanation
Indices: 3454740--3454764 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3454730 TAATTTATAT
3454740 GTGTGAAAATTTC
1 GTGTGAAAATTTC
3454753 GTGTGAAAATTT
1 GTGTGAAAATTT
3454765 TATCGTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:3469761 original size:25 final size:26
Alignment explanation
Indices: 3469710--3469763 Score: 92
Period size: 27 Copynumber: 2.1 Consensus size: 26
3469700 AACCAGAAAA
3469710 ACAAAGAAACGTGCCAAAATACGGCAG
1 ACAAAGAAACGTGCC-AAATACGGCAG
3469737 ACAAAGAAACGTGCC-AATACGGCAG
1 ACAAAGAAACGTGCCAAATACGGCAG
3469762 AC
1 AC
3469764 TTACTTAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 12 0.44
27 15 0.56
ACGTcount: A:0.46, C:0.24, G:0.22, T:0.07
Consensus pattern (26 bp):
ACAAAGAAACGTGCCAAATACGGCAG
Found at i:3474785 original size:16 final size:16
Alignment explanation
Indices: 3474764--3474799 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
3474754 TAGTCTTAGT
3474764 TCTTTGTTATTTGCCC
1 TCTTTGTTATTTGCCC
3474780 TCTTTGTTATTTGCCC
1 TCTTTGTTATTTGCCC
3474796 TCTT
1 TCTT
3474800 ATGCCTAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.06, C:0.25, G:0.11, T:0.58
Consensus pattern (16 bp):
TCTTTGTTATTTGCCC
Found at i:3476801 original size:21 final size:21
Alignment explanation
Indices: 3476777--3476844 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 21
3476767 CGTTTAATTA
3476777 AAATAAATGTTTGATTCATTG
1 AAATAAATGTTTGATTCATTG
* * *** **
3476798 AAATAAA--ATAGAAAGATAA
1 AAATAAATGTTTGATTCATTG
3476817 AAATAAATGTTTGATTCATTG
1 AAATAAATGTTTGATTCATTG
3476838 AAATAAA
1 AAATAAA
3476845 ATAGAAAGAT
Statistics
Matches: 31, Mismatches: 14, Indels: 4
0.63 0.29 0.08
Matches are distributed among these distances:
19 12 0.39
21 19 0.61
ACGTcount: A:0.53, C:0.03, G:0.12, T:0.32
Consensus pattern (21 bp):
AAATAAATGTTTGATTCATTG
Found at i:3476829 original size:40 final size:40
Alignment explanation
Indices: 3476776--3476857 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
3476766 TCGTTTAATT
3476776 AAAATAAATGTTTGATTCATTGAAATAAAATAGAAAGATA
1 AAAATAAATGTTTGATTCATTGAAATAAAATAGAAAGATA
3476816 AAAATAAATGTTTGATTCATTGAAATAAAATAGAAAGATA
1 AAAATAAATGTTTGATTCATTGAAATAAAATAGAAAGATA
3476856 AA
1 AA
3476858 TATACTTATT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.56, C:0.02, G:0.12, T:0.29
Consensus pattern (40 bp):
AAAATAAATGTTTGATTCATTGAAATAAAATAGAAAGATA
Found at i:3478936 original size:24 final size:24
Alignment explanation
Indices: 3478905--3478952 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
3478895 CATTTTAAGA
3478905 AAAAAAATGAAGAGTCAGGGTATG
1 AAAAAAATGAAGAGTCAGGGTATG
3478929 AAAAAAATGAAGAGTCAGGGTATG
1 AAAAAAATGAAGAGTCAGGGTATG
3478953 TAGCATTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.50, C:0.04, G:0.29, T:0.17
Consensus pattern (24 bp):
AAAAAAATGAAGAGTCAGGGTATG
Found at i:3490169 original size:41 final size:40
Alignment explanation
Indices: 3490090--3490271 Score: 186
Period size: 41 Copynumber: 4.5 Consensus size: 40
3490080 TTTCATTGCT
* * * **
3490090 ATCCTTTTCGACATTTTCA-TTGATATCTTTTTTAGATAA
1 ATCCTTTTCAACCTTTTCATTTGATATCCTTTTCGGATAA
3490129 GATCCTTTTCAACCTTTTCATTTGATATCCTTTTCGGATAA
1 -ATCCTTTTCAACCTTTTCATTTGATATCCTTTTCGGATAA
* * * *
3490170 CACCCTTTTCAACCTTTTCATTTAATATCCCTTTTCGAATAT
1 -ATCCTTTTCAACCTTTTCATTTGATAT-CCTTTTCGGATAA
* * * * *
3490212 ATCCTTTTCAACATTTTCATGTGTTATCCCTTTCGGGTAA
1 ATCCTTTTCAACCTTTTCATTTGATATCCTTTTCGGATAA
*
3490252 CTCTCTTTTCAACCTTTTCA
1 ATC-CTTTTCAACCTTTTCA
3490272 AGGATTCGGG
Statistics
Matches: 118, Mismatches: 21, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
40 28 0.24
41 79 0.67
42 11 0.09
ACGTcount: A:0.22, C:0.24, G:0.07, T:0.47
Consensus pattern (40 bp):
ATCCTTTTCAACCTTTTCATTTGATATCCTTTTCGGATAA
Found at i:3494275 original size:6 final size:6
Alignment explanation
Indices: 3494264--3494291 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
3494254 TTTTAAAACC
3494264 ACCTCA ACCTCA ACCTCA ACCTCA ACCT
1 ACCTCA ACCTCA ACCTCA ACCTCA ACCT
3494292 GAAAACTACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.32, C:0.50, G:0.00, T:0.18
Consensus pattern (6 bp):
ACCTCA
Found at i:3504020 original size:11 final size:11
Alignment explanation
Indices: 3504006--3504093 Score: 50
Period size: 11 Copynumber: 7.9 Consensus size: 11
3503996 AATACATCTG
3504006 AAATAATAACA
1 AAATAATAACA
*
3504017 AAATTAATAATA
1 AAA-TAATAACA
**
3504029 AAATAATAATT
1 AAATAATAACA
* * * *
3504040 ATACAATATCT
1 AAATAATAACA
* *
3504051 AAATAACAATA
1 AAATAATAACA
* *
3504062 ATATAATAACG
1 AAATAATAACA
*
3504073 ATATAATAACA
1 AAATAATAACA
*
3504084 AAATCATAAC
1 AAATAATAAC
3504094 CACAAAACAC
Statistics
Matches: 57, Mismatches: 19, Indels: 2
0.73 0.24 0.03
Matches are distributed among these distances:
11 47 0.82
12 10 0.18
ACGTcount: A:0.62, C:0.09, G:0.01, T:0.27
Consensus pattern (11 bp):
AAATAATAACA
Found at i:3504092 original size:14 final size:13
Alignment explanation
Indices: 3504008--3504092 Score: 59
Period size: 14 Copynumber: 6.3 Consensus size: 13
3503998 TACATCTGAA
3504008 ATAATAACAAAAT
1 ATAATAACAAAAT
*
3504021 -TAATAATAAAAT
1 ATAATAACAAAAT
*
3504033 AATAATTATACAATAT
1 -ATAA-TA-ACAAAAT
*
3504049 CTAAATAACAATAAT
1 AT-AATAACAA-AAT
*
3504064 ATAATAAC--GAT
1 ATAATAACAAAAT
3504075 ATAATAACAAAAT
1 ATAATAACAAAAT
3504088 CATAA
1 -ATAA
3504093 CCACAAAACA
Statistics
Matches: 55, Mismatches: 8, Indels: 17
0.69 0.10 0.21
Matches are distributed among these distances:
11 10 0.18
12 11 0.20
13 2 0.04
14 17 0.31
15 8 0.15
16 7 0.13
ACGTcount: A:0.62, C:0.08, G:0.01, T:0.28
Consensus pattern (13 bp):
ATAATAACAAAAT
Found at i:3508786 original size:31 final size:31
Alignment explanation
Indices: 3508725--3508789 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
3508715 AATTTAAAAT
* *
3508725 ATTTTAATTAAAACCTACAAAAGTTTTGAAA
1 ATTTTAATTAAAACCTACAAAACTTCTGAAA
* **
3508756 ATTTTAATTAAACCCTTTAAAACTTCTGAAA
1 ATTTTAATTAAAACCTACAAAACTTCTGAAA
3508787 ATT
1 ATT
3508790 CTCATTAATT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.45, C:0.12, G:0.05, T:0.38
Consensus pattern (31 bp):
ATTTTAATTAAAACCTACAAAACTTCTGAAA
Found at i:3513590 original size:13 final size:13
Alignment explanation
Indices: 3513569--3513618 Score: 64
Period size: 13 Copynumber: 3.8 Consensus size: 13
3513559 TTTTCATTAA
*
3513569 TTTTAAAAAGTGC
1 TTTTGAAAAGTGC
3513582 TTTTGAAAAGTGC
1 TTTTGAAAAGTGC
* **
3513595 TTTTGAGAAGTAA
1 TTTTGAAAAGTGC
3513608 TTTTGAAAAGT
1 TTTTGAAAAGT
3513619 TTAGTTTAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 32 1.00
ACGTcount: A:0.36, C:0.04, G:0.20, T:0.40
Consensus pattern (13 bp):
TTTTGAAAAGTGC
Done.