Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 13 of 295
Found at i:4075461 original size:235 final size:235
Alignment explanation
Indices: 4075043--4075647 Score: 853
Period size: 235 Copynumber: 2.6 Consensus size: 235
4075033 TTTATTTTTG
*
4075043 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCA
1 TTTTCAAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCA
*
4075108 ATTTCTATCTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACACTGA
66 ATTTCTATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGA
* *
4075173 AGTAATTTAAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGG
131 AGTAATTTAAACTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGG
* * * *
4075237 ACGCACTGAGGTATTTTCAAATTCT-GTTTTTCAATTTATGT
196 -CACACTGAGGTATTTTC-AATTCTCGTTTTCCAACTTATGC
* *
4075278 TTTTCAAAAATCAATTCATATTGCTAGAGGTGAGTTGAGCTTCAAGACACGTTGAGGTATTTTCA
1 TTTTCAAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCA
* **
4075343 ATTTCTATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGACATGCTG-
66 ATTTCTATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGA
*
4075407 AGATAATTTCAACTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAG
131 AG-TAATTTAAACTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAG
*
4075472 GCACACTGAGGTATTTTCAATTTTCGTTTTCCAACTTATGC
195 GCACACTGAGGTATTTTCAATTCTCGTTTTCCAACTTATGC
* * ** * *
4075513 TTTTCAAAAA-AAATTGACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTA
1 TTTTCAAAAATCAA-T---TCATATTGCGAGAGGTGAGTTGAGCCTCAAG--ACACGTTGAGGTA
* * *
4075577 TTGTT-AGTTTATATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-GAG
60 TT-TTCAATTTCTATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA-
4075640 CACACTGA
123 CACACTGA
4075648 GGTATTTTCA
Statistics
Matches: 329, Mismatches: 29, Indels: 18
0.88 0.08 0.05
Matches are distributed among these distances:
234 9 0.03
235 218 0.66
236 3 0.01
238 26 0.08
239 2 0.01
240 69 0.21
241 2 0.01
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.33
Consensus pattern (235 bp):
TTTTCAAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCA
ATTTCTATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGA
AGTAATTTAAACTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGG
CACACTGAGGTATTTTCAATTCTCGTTTTCCAACTTATGC
Found at i:4075481 original size:73 final size:72
Alignment explanation
Indices: 4075264--4075502 Score: 268
Period size: 73 Copynumber: 3.2 Consensus size: 72
4075254 CAAATTCTGT
* * * * * *
4075264 TTTTCAATTTATGTTTTTCAAAAATCAATTCATATTGCTAGAGGTGAGTTGAGCTTCAAGACACG
1 TTTTCAATTTCTG-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACA
*
4075329 TTGAGGTA
65 CTGAGGTA
* *
4075337 TTTTCAATTTCTATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TAGG-A
1 TTTTCAATTTCTGT-TTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCA
*
4075400 CATGCTGAGATA
63 CA--CTGAGGTA
* * *
4075412 ATTTCAACTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGGCACA
1 TTTTCAATTTCTGTTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACA
4075477 CTGAGGTA
65 CTGAGGTA
4075485 TTTTCAATTT-TCGTTTTC
1 TTTTCAATTTCT-GTTTTC
4075503 CAACTTATGC
Statistics
Matches: 139, Mismatches: 18, Indels: 19
0.79 0.10 0.11
Matches are distributed among these distances:
72 4 0.03
73 72 0.52
74 7 0.05
75 56 0.40
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (72 bp):
TTTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACAC
TGAGGTA
Found at i:4076930 original size:15 final size:15
Alignment explanation
Indices: 4076910--4076938 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
4076900 TAAAATGTAA
4076910 AAAAAAATATAAAAC
1 AAAAAAATATAAAAC
4076925 AAAAAAATATAAAA
1 AAAAAAATATAAAA
4076939 TTTTTACTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.83, C:0.03, G:0.00, T:0.14
Consensus pattern (15 bp):
AAAAAAATATAAAAC
Found at i:4077521 original size:3 final size:3
Alignment explanation
Indices: 4077513--4077563 Score: 59
Period size: 3 Copynumber: 16.7 Consensus size: 3
4077503 TTAATTTTGC
* *
4077513 TAT TAT TAT TGT TA- TAT TAT TGT TACT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT
4077558 ATAT TA
1 -TAT TA
4077564 GTGTATATCT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
2 2 0.05
3 33 0.80
4 6 0.15
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:4077548 original size:16 final size:16
Alignment explanation
Indices: 4077513--4077563 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
4077503 TTAATTTTGC
*
4077513 TATTATTATTGTTATAT
1 TATTATTATT-ATATAT
*
4077530 TATTGTTACTTAT-TAT
1 TATTATTA-TTATATAT
4077546 TATTATTATTATATAT
1 TATTATTATTATATAT
4077562 TA
1 TA
4077564 GTGTATATCT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
15 4 0.14
16 15 0.52
17 8 0.28
18 2 0.07
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (16 bp):
TATTATTATTATATAT
Found at i:4077747 original size:15 final size:15
Alignment explanation
Indices: 4077727--4077777 Score: 59
Period size: 15 Copynumber: 3.4 Consensus size: 15
4077717 TTTCATACAG
*
4077727 TATTATCATTTCTAT
1 TATTATCATATCTAT
*
4077742 TATTATTATATCTAT
1 TATTATCATATCTAT
*
4077757 TATTTTCACTAT-TAT
1 TATTATCA-TATCTAT
4077772 TATTAT
1 TATTAT
4077778 TTTTTATCAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
15 27 0.90
16 3 0.10
ACGTcount: A:0.29, C:0.10, G:0.00, T:0.61
Consensus pattern (15 bp):
TATTATCATATCTAT
Found at i:4077859 original size:23 final size:22
Alignment explanation
Indices: 4077805--4077862 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 22
4077795 CATGTATATA
4077805 TATAGATATTTTTTAGTACTTAT
1 TATA-ATATTTTTTAGTACTTAT
*
4077828 TATAATATTTTCTTATTA-TTAT
1 TATAATATTTT-TTAGTACTTAT
*
4077850 GTATATTATTTTT
1 -TATAATATTTTT
4077863 ACTCATTTCT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
22 12 0.39
23 19 0.61
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.62
Consensus pattern (22 bp):
TATAATATTTTTTAGTACTTAT
Found at i:4081500 original size:16 final size:16
Alignment explanation
Indices: 4081479--4081527 Score: 80
Period size: 16 Copynumber: 3.1 Consensus size: 16
4081469 TTCGCTGTAT
4081479 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
* *
4081495 TGGAATAAAGGTGTAA
1 TGGAATAGAGGCGTAA
4081511 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
4081527 T
1 T
4081528 AGCAAATCAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.39, C:0.04, G:0.35, T:0.22
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:4081846 original size:61 final size:60
Alignment explanation
Indices: 4081776--4081964 Score: 206
Period size: 61 Copynumber: 3.1 Consensus size: 60
4081766 ATTTAATAAA
4081776 AATATATAATTTAGTAAAATTCTTAATATTAAATATTCTTATATGAATTTTCTAAAATCAT
1 AATATATAATTTA-TAAAATTCTTAATATTAAATATTCTTATATGAATTTTCTAAAATCAT
* * * * * ** ** * *
4081837 AATATATAATACTATAAAA-T-ATAAT-TTAACATAATTATTAT-TAAATATAATTTAATAAA
1 AATATATAAT-TTATAAAATTCTTAATATTAA-AT-ATTCTTATATGAATTTTCTAAAATCAT
4081896 AATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTTCTAAAATCAT
1 AATATATAATTT-ATAAAATTCTTAATATTAAATATTCTTATATGAATTTTCTAAAATCAT
4081957 AATATATA
1 AATATATA
4081965 TAATACTACA
Statistics
Matches: 98, Mismatches: 22, Indels: 16
0.72 0.16 0.12
Matches are distributed among these distances:
58 5 0.05
59 32 0.33
60 16 0.16
61 39 0.40
62 6 0.06
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (60 bp):
AATATATAATTTATAAAATTCTTAATATTAAATATTCTTATATGAATTTTCTAAAATCAT
Found at i:4081932 original size:120 final size:120
Alignment explanation
Indices: 4081741--4081964 Score: 439
Period size: 120 Copynumber: 1.9 Consensus size: 120
4081731 TTAATCATAT
*
4081741 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAGTAAAATTCTTAATATT
1 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
4081806 AAATATTCTTATATGAATTTTCTAAAATCATAATATATAATACTATAAAATATAA
66 AAATATTCTTATATGAATTTTCTAAAATCATAATATATAATACTATAAAATATAA
4081861 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
4081926 AAATATTCTTATATGAATTTTCTAAAATCATAATATATA
66 AAATATTCTTATATGAATTTTCTAAAATCATAATATATA
4081965 TAATACTACA
Statistics
Matches: 103, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 103 1.00
ACGTcount: A:0.50, C:0.05, G:0.01, T:0.44
Consensus pattern (120 bp):
TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
AAATATTCTTATATGAATTTTCTAAAATCATAATATATAATACTATAAAATATAA
Found at i:4081962 original size:59 final size:59
Alignment explanation
Indices: 4081779--4081962 Score: 182
Period size: 59 Copynumber: 3.1 Consensus size: 59
4081769 TAATAAAAAT
*
4081779 ATATAATTTAGTAAAATTCTTAATATTAAATATTCTTATATGAATTTTCTAAAATCATA
1 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTTCTAAAATCATA
* * * * * **
4081838 ATAT-ATAATACTATAAAATATAATTTAACA-TAATTATTATTAAATAT-AATTTAATAAAA--A
1 ATATAAT-TTA--ATAAAAT-T--CTTAATATTAAATATTCTT--ATATGAATTTTCTAAAATCA
4081898 T-
58 TA
4081899 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTTCTAAAATCATA
1 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTTCTAAAATCATA
4081958 ATATA
1 ATATA
4081963 TATAATACTA
Statistics
Matches: 96, Mismatches: 15, Indels: 28
0.69 0.11 0.20
Matches are distributed among these distances:
55 4 0.04
56 15 0.16
57 9 0.09
58 5 0.05
59 18 0.19
61 12 0.12
62 5 0.05
63 9 0.09
64 15 0.16
65 4 0.04
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (59 bp):
ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTTCTAAAATCATA
Found at i:4082090 original size:14 final size:15
Alignment explanation
Indices: 4082071--4082103 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
4082061 CATTATTCTT
*
4082071 AAAATTCAAAAA-TA
1 AAAATTAAAAAACTA
4082085 AAAATTAAAAAACTA
1 AAAATTAAAAAACTA
4082100 AAAA
1 AAAA
4082104 ATTTAAACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.18
Consensus pattern (15 bp):
AAAATTAAAAAACTA
Found at i:4082574 original size:58 final size:58
Alignment explanation
Indices: 4082451--4082600 Score: 212
Period size: 59 Copynumber: 2.6 Consensus size: 58
4082441 AAAGTTGCTA
* **
4082451 TGTTTTGGCACTAAAAGCAACCGCAAGCCACAACTACCAGCATGTCAAGGATTAAATT
1 TGTTTTGGCACTAAAAGCAACCGCAAGTCACAAGAACCAGCATGTCAAGGATTAAATT
* * * *
4082509 TGTTTTGGCACCAAAAGTAAACCACAAGTCACAAGAACCAGCATGTCAAGGATTGAATT
1 TGTTTTGGCACTAAAAG-CAACCGCAAGTCACAAGAACCAGCATGTCAAGGATTAAATT
*
4082568 TGTTTGGGCACTAAAAGCAACCGCAA-TCACAAG
1 TGTTTTGGCACTAAAAGCAACCGCAAGTCACAAG
4082601 CCACAAGTAC
Statistics
Matches: 80, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
57 7 0.09
58 23 0.29
59 50 0.62
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.21
Consensus pattern (58 bp):
TGTTTTGGCACTAAAAGCAACCGCAAGTCACAAGAACCAGCATGTCAAGGATTAAATT
Found at i:4085533 original size:67 final size:69
Alignment explanation
Indices: 4085424--4085562 Score: 228
Period size: 67 Copynumber: 2.0 Consensus size: 69
4085414 AAAGAATCAT
* *
4085424 ATTCCTAAAAAAAGCATATATCCTTTAACATCATGCTCTCTCTC-TCTATGTATATATGTCAAAC
1 ATTCCTAAAAAAAGCATATAACCTTTAACATCATGCTCTCTCTCATCTATGCATATATGTCAAAC
4085488 AAAA
66 AAAA
*
4085492 ATTCCT-AAAAAAGCATATAACCTTTAATATCATGCTCTCTCTCTATCTATGCATATATGTCAAA
1 ATTCCTAAAAAAAGCATATAACCTTTAACATCATGCTCTCTCTC-ATCTATGCATATATGTCAAA
4085556 CAAAA
65 CAAAA
4085561 AT
1 AT
4085563 GAGGAGTTTG
Statistics
Matches: 66, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
67 35 0.53
68 6 0.09
69 25 0.38
ACGTcount: A:0.39, C:0.22, G:0.06, T:0.34
Consensus pattern (69 bp):
ATTCCTAAAAAAAGCATATAACCTTTAACATCATGCTCTCTCTCATCTATGCATATATGTCAAAC
AAAA
Found at i:4086909 original size:14 final size:14
Alignment explanation
Indices: 4086890--4086921 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
4086880 TGTTAATTAA
4086890 TTAGGGTAGGTGGT
1 TTAGGGTAGGTGGT
4086904 TTAGGGTAGGTGGT
1 TTAGGGTAGGTGGT
4086918 TTAG
1 TTAG
4086922 AAGGACTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.47, T:0.38
Consensus pattern (14 bp):
TTAGGGTAGGTGGT
Found at i:4091355 original size:18 final size:18
Alignment explanation
Indices: 4091332--4091374 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
4091322 GTTTAAGGTG
4091332 TAATTAATTTAAAATT-TT
1 TAATTAA-TTAAAATTATT
*
4091350 TAATTAATTAAATTTATT
1 TAATTAATTAAAATTATT
4091368 TAATTAA
1 TAATTAA
4091375 AAACATATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.30
18 16 0.70
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TAATTAATTAAAATTATT
Found at i:4094211 original size:25 final size:26
Alignment explanation
Indices: 4094156--4094212 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
4094146 AAAATATATT
* ** *
4094156 TATATTGTCTATTTTTAATTCTTTTA
1 TATATTGTATATTTTTAAACCTGTTA
*
4094182 CATATTGTATA-TTTTAAACCTGTTA
1 TATATTGTATATTTTTAAACCTGTTA
4094207 TATATT
1 TATATT
4094213 ATTTTAAATT
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
25 16 0.64
26 9 0.36
ACGTcount: A:0.28, C:0.09, G:0.05, T:0.58
Consensus pattern (26 bp):
TATATTGTATATTTTTAAACCTGTTA
Found at i:4099040 original size:139 final size:138
Alignment explanation
Indices: 4098756--4099043 Score: 387
Period size: 139 Copynumber: 2.1 Consensus size: 138
4098746 TCAACTTTGT
* *
4098756 CTGACACTTTTGGGTCGACACTTTCCTAAGTGTTGGGATAGACTTGTCAACATACGCTTTGACCA
1 CTGACAC-TTTGGGCCGACACTTTCCTAAGTGTTGGGATAAACTTGTCAACATACGCTTTGACCA
* * * * * *
4098821 ACTCTTTGTTTAAGTTTGGGATATGCATGCCTAAGGCAACACTTAAATAAGAGTCGACTTTGTCC
65 AATCTTTGTATAAGGTTGGGATATGCATACCTAAGGCAACACTTAAATAACAATCGACTTTGTCC
*
4098886 AACATTATG
130 AACACTATG
* * * ** *
4098895 CCGACACTTTGGGCCGACATTTTCCTGAGTGTTGGGATAAACTTGTCGTCATACGCTTTGGCCAA
1 CTGACACTTTGGGCCGACACTTTCCTAAGTGTTGGGATAAACTTGTCAACATACGCTTTGACCAA
* * *
4098960 ATCTTTGTATAAGGGTTGGGATATGCCTACCTAAGGCAACGCTTAAATAACAATTGACTTTGTCC
66 ATCTTTGTATAA-GGTTGGGATATGCATACCTAAGGCAACACTTAAATAACAATCGACTTTGTCC
4099025 AACACTATG
130 AACACTATG
*
4099034 TTGACACTTT
1 CTGACACTTT
4099044 CCTAAGTAAT
Statistics
Matches: 128, Mismatches: 20, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
138 61 0.48
139 67 0.52
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (138 bp):
CTGACACTTTGGGCCGACACTTTCCTAAGTGTTGGGATAAACTTGTCAACATACGCTTTGACCAA
ATCTTTGTATAAGGTTGGGATATGCATACCTAAGGCAACACTTAAATAACAATCGACTTTGTCCA
ACACTATG
Found at i:4100074 original size:23 final size:25
Alignment explanation
Indices: 4100048--4100094 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
4100038 TATCATTCAT
*
4100048 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
4100071 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
4100095 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:4100415 original size:46 final size:46
Alignment explanation
Indices: 4100355--4100747 Score: 532
Period size: 46 Copynumber: 8.9 Consensus size: 46
4100345 TTTGACGTGA
* * * * * *
4100355 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * *
4100401 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
4100447 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
4100493 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
4100539 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
4100585 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--AT-AGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
4100623 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
4100669 TGCCATGGTATCTTTCAGCCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
4100707 TGCCATGGTATCTTTCAACCATGGTTTTACACATTTCATAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
4100748 TAGAGAGCAC
Statistics
Matches: 314, Mismatches: 16, Indels: 34
0.86 0.04 0.09
Matches are distributed among these distances:
38 63 0.20
39 3 0.01
40 6 0.02
41 2 0.01
43 2 0.01
44 6 0.02
45 7 0.02
46 225 0.72
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:4100632 original size:38 final size:38
Alignment explanation
Indices: 4100581--4100740 Score: 221
Period size: 38 Copynumber: 4.0 Consensus size: 38
4100571 ATTTCATATC
4100581 AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAT
1 AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAT
4100619 AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 AGGTTGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--AT
* *
4100664 CAGGTTGCCATGGTATCTTTCAGCCATGGTCTTACACAC
1 -AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAT
*
4100703 AGGTTGCCATGGTATCTTTCAACCATGGTTTTACACAT
1 AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAT
4100741 TTCATATTAG
Statistics
Matches: 109, Mismatches: 5, Indels: 16
0.84 0.04 0.12
Matches are distributed among these distances:
38 67 0.61
39 1 0.01
40 3 0.03
41 1 0.01
43 1 0.01
44 3 0.03
45 2 0.02
46 31 0.28
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.35
Consensus pattern (38 bp):
AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAT
Found at i:4100676 original size:84 final size:84
Alignment explanation
Indices: 4100534--4100747 Score: 401
Period size: 84 Copynumber: 2.5 Consensus size: 84
4100524 CATTTCATAT
4100534 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTT
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTT
4100599 TCAACCATGGTCTTACACA
66 TCAACCATGGTCTTACACA
*
4100618 TAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTT
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTT
*
4100683 TCAGCCATGGTCTTACACA
66 TCAACCATGGTCTTACACA
*
4100702 CAGGTTGCCATGGTATCTTTCAACCATGGTTTTACACATTTCATAT
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
4100748 TAGAGAGCAC
Statistics
Matches: 126, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
84 126 1.00
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.36
Consensus pattern (84 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTT
TCAACCATGGTCTTACACA
Found at i:4106206 original size:143 final size:143
Alignment explanation
Indices: 4105924--4106394 Score: 626
Period size: 143 Copynumber: 3.3 Consensus size: 143
4105914 GGGATGGGAT
* * * *
4105924 TTGCTGTCTT-AGTTTGCTCCGCTGCAACTTCAAGGAGATGAA-GTTGGTGGCTTCAATTTGCTC
1 TTGCTGTCTTCAGTCTGCTCCACTACAACTTCAAGGAGAT-AAGGCTGGTGGCTTCAATTTGCTC
* * * * * * * *
4105987 CACTATAACTTCAGAAAGATAAGATTCGCCATAATTTATAACTTTAATATGTTCCACTGCAACGT
65 CACTGTAACTTCAGGAAGATAAGATTCACCATAATTTGTAGCTTCAATCTGTTCCACTGCAACTT
4106052 CAGGGAAATAAGAA
130 CAGGGAAATAAGAA
* * ** *
4106066 TTGATGCCTTCAGTCTATTCCACTACAACTTCAGGGAGATAAGGCTGGTGGCTTCAATTTGCTCC
1 TTGCTGTCTTCAGTCTGCTCCACTACAACTTCAAGGAGATAAGGCTGGTGGCTTCAATTTGCTCC
* * *
4106131 ACTGCAACTTCAGGAAGATAATATTCACCATAATTTGTAGCTTCAATCTGTTCCATTGCAACTTC
66 ACTGTAACTTCAGGAAGATAAGATTCACCATAATTTGTAGCTTCAATCTGTTCCACTGCAACTTC
*
4106196 AAGGAAATAAG-A
131 AGGGAAATAAGAA
* * * *
4106208 TTCGCTGTCTTCAATCTGCTCCGCTACAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTC
1 TT-GCTGTCTTCAGTCTGCTCCACTACAACTTCAAGGAGATAAGGCTGGTGGCTTCAATTTGCTC
**
4106273 CACTGTAACTTCAGGAAGATAAGATTTTCCATAATTTGTAGCTTCAATCTGTTCCACTGCAACTT
65 CACTGTAACTTCAGGAAGATAAGATTCACCATAATTTGTAGCTTCAATCTGTTCCACTGCAACTT
*
4106338 CAGGGAAATAAGAT
130 CAGGGAAATAAGAA
*
4106352 TTGCTGTCTTC-GATCTGCTCCACTACAACTTCAAGAAGATAAG
1 TTGCTGTCTTCAG-TCTGCTCCACTACAACTTCAAGGAGATAAG
4106395 ATTTACAACT
Statistics
Matches: 285, Mismatches: 39, Indels: 9
0.86 0.12 0.03
Matches are distributed among these distances:
142 13 0.05
143 270 0.95
144 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (143 bp):
TTGCTGTCTTCAGTCTGCTCCACTACAACTTCAAGGAGATAAGGCTGGTGGCTTCAATTTGCTCC
ACTGTAACTTCAGGAAGATAAGATTCACCATAATTTGTAGCTTCAATCTGTTCCACTGCAACTTC
AGGGAAATAAGAA
Found at i:4106238 original size:45 final size:45
Alignment explanation
Indices: 4106171--4106421 Score: 179
Period size: 45 Copynumber: 5.4 Consensus size: 45
4106161 TAATTTGTAG
* *
4106171 CTTCAATCTGTTCCATTGCAACTTCAAGGAAATAAGATTCGCTGT
1 CTTCAATCTGCTCCACTGCAACTTCAAGGAAATAAGATTCGCTGT
* * * * ** * *
4106216 CTTCAATCTGCTCCGCTACAACTTCAGGGAGATAAGGCT-GGTGG
1 CTTCAATCTGCTCCACTGCAACTTCAAGGAAATAAGATTCGCTGT
*
4106260 CTTCAATCTGCTCCACTGTAACTTC-AGGAAGATAAGATTTTC-CATAATTTGT
1 CTTCAATCTGCTCCACTGCAACTTCAAGGAA-ATAAGA--TTCGC------TGT
* * *
4106312 AGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTGT
1 --CTTCAATCTGCTCCACTGCAACTTCAAGGAAATAAGATTCGCTGT
* * ** **
4106359 CTTCGATCTGCTCCACTACAACTTCAA-GAAGATAAGATTTAC-AA
1 CTTCAATCTGCTCCACTGCAACTTCAAGGAA-ATAAGATTCGCTGT
4106403 CTTCAATCTGCTCCACTGC
1 CTTCAATCTGCTCCACTGC
4106422 TATTTCAGGG
Statistics
Matches: 159, Mismatches: 32, Indels: 31
0.72 0.14 0.14
Matches are distributed among these distances:
43 3 0.02
44 50 0.31
45 64 0.40
46 1 0.01
47 3 0.02
52 4 0.03
53 1 0.01
54 29 0.18
55 4 0.03
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (45 bp):
CTTCAATCTGCTCCACTGCAACTTCAAGGAAATAAGATTCGCTGT
Found at i:4106393 original size:99 final size:98
Alignment explanation
Indices: 4106216--4106398 Score: 249
Period size: 99 Copynumber: 1.9 Consensus size: 98
4106206 GATTCGCTGT
* * * **
4106216 CTTCAATCTGCTCCGCTACAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGTAA
1 CTTCAATCTGCTCCACTACAACTTCAGGGAAATAAGGCTGCTGGCTTCAATCTGCTCCACTACAA
*
4106281 CTTCAGGAAGATAAGATTTTCCATAATTTGTAG
66 CTTCAAGAAGATAAGATTTTCCATAATTTGTAG
* * ** * *
4106314 CTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTGTCTTCGATCTGCTCCACTACA
1 CTTCAATCTGCTCCACTACAACTTCAGGGAAATAAG-GCTGCTGGCTTCAATCTGCTCCACTACA
4106379 ACTTCAAGAAGATAAGATTT
65 ACTTCAAGAAGATAAGATTT
4106399 ACAACTTCAA
Statistics
Matches: 72, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
98 32 0.44
99 40 0.56
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (98 bp):
CTTCAATCTGCTCCACTACAACTTCAGGGAAATAAGGCTGCTGGCTTCAATCTGCTCCACTACAA
CTTCAAGAAGATAAGATTTTCCATAATTTGTAG
Found at i:4106441 original size:44 final size:45
Alignment explanation
Indices: 4106314--4106442 Score: 143
Period size: 45 Copynumber: 2.9 Consensus size: 45
4106304 TAATTTGTAG
* * * **
4106314 CTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTGT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTACTAA
* * * *
4106359 CTTCGATCTGCTCCACTACAACTTCAAGAAGATAAGATTTAC-AA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTACTAA
* * *
4106403 CTTCAATCTGCTCCACTGCTATTTCAGGGAGATGAGATTT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTT
4106443 GTGGATTCAC
Statistics
Matches: 68, Mismatches: 16, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
44 33 0.49
45 35 0.51
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (45 bp):
CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTACTAA
Found at i:4109628 original size:49 final size:49
Alignment explanation
Indices: 4109575--4109806 Score: 304
Period size: 49 Copynumber: 4.7 Consensus size: 49
4109565 CTGGTACGCA
* *
4109575 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
** ** *
4109624 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATTTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCGGTACACG
* * *
4109674 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTAC-GG
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCCGGTACACG
* *
4109724 ATAGTAGCCTGCACTTAGTACTACACATGTGACCAATAATCCGGTACACG
1 -TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
*
4109774 TAGTAGCCTACACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
4109807 TCACAATAGA
Statistics
Matches: 157, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
49 71 0.45
50 49 0.31
51 37 0.24
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
Found at i:4109748 original size:101 final size:98
Alignment explanation
Indices: 4109575--4109806 Score: 313
Period size: 100 Copynumber: 2.3 Consensus size: 98
4109565 CTGGTACGCA
* *
4109575 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACGTAGTAGCCTGCACTTA
* **
4109640 GTACTACACACGTGACCTAACCATTTGATACACG
66 GTACTACACACGTGACC-AACAATCCGATACACG
* * *
4109674 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTAC-GGATAGTAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCCGGTACACG-TAGTAGCCTGCAC
* * *
4109738 TTAGTACTACACATGTGACCAATAATCCGGTACACG
63 TTAGTACTACACACGTGACCAACAATCCGATACACG
*
4109774 TAGTAGCCTACACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
4109807 TCACAATAGA
Statistics
Matches: 117, Mismatches: 13, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
99 30 0.26
100 45 0.38
101 42 0.36
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (98 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACGTAGTAGCCTGCACTTA
GTACTACACACGTGACCAACAATCCGATACACG
Found at i:4114842 original size:49 final size:49
Alignment explanation
Indices: 4114789--4115020 Score: 304
Period size: 49 Copynumber: 4.7 Consensus size: 49
4114779 CTGGTACGCA
* * *
4114789 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
** * *
4114838 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCGGTACACG
* * *
4114888 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTAC-GG
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCCGGTACACG
* * *
4114938 ATAGTAGCCTGCACTTAGTACTACACATGTGACCAATAATTCGGTACACG
1 -TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
4114988 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
4115021 TCACAATAGA
Statistics
Matches: 158, Mismatches: 20, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
49 71 0.45
50 49 0.31
51 38 0.24
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
Found at i:4114959 original size:101 final size:98
Alignment explanation
Indices: 4114789--4115020 Score: 324
Period size: 100 Copynumber: 2.3 Consensus size: 98
4114779 CTGGTACGCA
* * *
4114789 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACATGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACAGGTAGTAGCCTGCACTTA
*
4114854 GTACTACACACGTGACCTAACCA-TCTGATACACG
66 GTACTACACACGTGACC-AACAATTC-GATACACG
* *
4114888 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTAC-GGATAGTAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCCGGTACAGG-TAGTAGCCTGCAC
* * *
4114952 TTAGTACTACACATGTGACCAATAATTCGGTACACG
63 TTAGTACTACACACGTGACCAACAATTCGATACACG
4114988 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
4115021 TCACAATAGA
Statistics
Matches: 119, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
99 30 0.25
100 45 0.38
101 44 0.37
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.25
Consensus pattern (98 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACAGGTAGTAGCCTGCACTTA
GTACTACACACGTGACCAACAATTCGATACACG
Found at i:4116197 original size:41 final size:41
Alignment explanation
Indices: 4116140--4116219 Score: 142
Period size: 41 Copynumber: 2.0 Consensus size: 41
4116130 AATCATTTCA
4116140 TGAAATAGTAGACCATAAAAATATAATAAAAATGAAATTCG
1 TGAAATAGTAGACCATAAAAATATAATAAAAATGAAATTCG
* *
4116181 TGAAATCGTAGACCATACAAATATAATAAAAATGAAATT
1 TGAAATAGTAGACCATAAAAATATAATAAAAATGAAATT
4116220 TTTCTCATTG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.55, C:0.09, G:0.11, T:0.25
Consensus pattern (41 bp):
TGAAATAGTAGACCATAAAAATATAATAAAAATGAAATTCG
Found at i:4122523 original size:3 final size:3
Alignment explanation
Indices: 4122515--4122542 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
4122505 TATTGGTCCA
4122515 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
4122543 TCTTCATTAT
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:4124233 original size:18 final size:17
Alignment explanation
Indices: 4124212--4124255 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
4124202 TATATTTATA
*
4124212 TTTATTTTAATTTTAATT
1 TTTATTTT-ATTGTAATT
4124230 TTTATCTTTATTGTAATT
1 TTTAT-TTTATTGTAATT
*
4124248 TTTCTTTT
1 TTTATTTT
4124256 TATGTTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 3 0.13
18 17 0.74
19 3 0.13
ACGTcount: A:0.20, C:0.05, G:0.02, T:0.73
Consensus pattern (17 bp):
TTTATTTTATTGTAATT
Found at i:4124239 original size:24 final size:24
Alignment explanation
Indices: 4124206--4124267 Score: 79
Period size: 24 Copynumber: 2.6 Consensus size: 24
4124196 TCTCTTTATA
4124206 TTTATATTTATTTTAATTTTAATT
1 TTTATATTTATTTTAATTTTAATT
* * **
4124230 TTTATCTTTATTGTAATTTTTCTT
1 TTTATATTTATTTTAATTTTAATT
*
4124254 TTTATGTTTATTTT
1 TTTATATTTATTTT
4124268 GTCTTTCTAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.73
Consensus pattern (24 bp):
TTTATATTTATTTTAATTTTAATT
Found at i:4130637 original size:13 final size:13
Alignment explanation
Indices: 4130621--4130654 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
4130611 TTTTTATTAG
*
4130621 AAATAAACAAATT
1 AAATAAAAAAATT
4130634 AAATAAAAAAATT
1 AAATAAAAAAATT
4130647 AAATAAAA
1 AAATAAAA
4130655 CATTTTTTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (13 bp):
AAATAAAAAAATT
Found at i:4134035 original size:104 final size:103
Alignment explanation
Indices: 4133840--4134087 Score: 275
Period size: 104 Copynumber: 2.4 Consensus size: 103
4133830 ATACGGCTAG
* * * *
4133840 GGACATGAGCGTGTGCCTAGGCTATGTGAGCCACACGGGCAAAGACATGACGTGTGTCTAAGTCG
1 GGACATGAGCGTGTGCCCAGGCTGTGTGAGCCACACAGGCAAAGACATGACGTGTGTCCAAGTCG
** * *
4133905 TGTAACTCACTGTTTATGCTTTAGAACCACATGGCC-A
66 TGTAACTCACTGTTTACACTTTAGAACCACACGACCAA
* * * * * * *
4133942 GAGACATGGGCGTGTGCCCAGGCCGTGTGAGCCACATAGGTAAGGACATGGGCGTGTGTCC-AGG
1 G-GACATGAGCGTGTGCCCAGGCTGTGTGAGCCACACAGGCAAAGACAT-GACGTGTGTCCAAGT
**
4134006 CTGTGTAACTCGTTGTTTACACTTTAGAACCACACGACCAA
64 C-GTGTAACTCACTGTTTACACTTTAGAACCACACGACCAA
* * *
4134047 GGACATGTGCGTGTGCCCAAGCTGTGTGAGCCACACGGGCA
1 GGACATGAGCGTGTGCCCAGGCTGTGTGAGCCACACAGGCA
4134088 TGGGAAGCAA
Statistics
Matches: 119, Mismatches: 23, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
102 1 0.01
103 42 0.35
104 74 0.62
105 2 0.02
ACGTcount: A:0.24, C:0.24, G:0.30, T:0.22
Consensus pattern (103 bp):
GGACATGAGCGTGTGCCCAGGCTGTGTGAGCCACACAGGCAAAGACATGACGTGTGTCCAAGTCG
TGTAACTCACTGTTTACACTTTAGAACCACACGACCAA
Found at i:4141767 original size:12 final size:12
Alignment explanation
Indices: 4141750--4141780 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
4141740 AGGTTTAACC
4141750 GACTAACCATCT
1 GACTAACCATCT
4141762 GACTAACCATCT
1 GACTAACCATCT
*
4141774 AACTAAC
1 GACTAAC
4141781 TACTAACAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.39, C:0.32, G:0.06, T:0.23
Consensus pattern (12 bp):
GACTAACCATCT
Found at i:4143588 original size:39 final size:39
Alignment explanation
Indices: 4143534--4143610 Score: 136
Period size: 39 Copynumber: 2.0 Consensus size: 39
4143524 AGAGCTGGAT
*
4143534 GAATTTGAACCAGACAAACTTGACCCAGCCTGTTCACAA
1 GAATTTGAACCAGACAAACTTGACCCAGCCTGGTCACAA
*
4143573 GAATTTGAACCAGACAAATTTGACCCAGCCTGGTCACA
1 GAATTTGAACCAGACAAACTTGACCCAGCCTGGTCACA
4143611 TGACACCTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.35, C:0.27, G:0.17, T:0.21
Consensus pattern (39 bp):
GAATTTGAACCAGACAAACTTGACCCAGCCTGGTCACAA
Found at i:4149039 original size:18 final size:18
Alignment explanation
Indices: 4149018--4149058 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
4149008 ATTTTCAAAA
4149018 AAATATAATAATAAAT-TT
1 AAATATAAT-ATAAATATT
*
4149036 AAATATAATATTAATATT
1 AAATATAATATAAATATT
4149054 AAATA
1 AAATA
4149059 AATGTTAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
AAATATAATATAAATATT
Found at i:4153740 original size:13 final size:13
Alignment explanation
Indices: 4153722--4153749 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
4153712 ATATCGATTT
4153722 AAAGTATTTTATA
1 AAAGTATTTTATA
4153735 AAAGTATTTTATA
1 AAAGTATTTTATA
4153748 AA
1 AA
4153750 GAAAAAAAGA
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:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (13 bp):
AAAGTATTTTATA
Found at i:4154166 original size:26 final size:26
Alignment explanation
Indices: 4154097--4154168 Score: 76
Period size: 29 Copynumber: 2.7 Consensus size: 26
4154087 CTCGGCTTGA
*
4154097 ATATA-TTATATTATAAAAATAATTAT
1 ATATATTTATATTA-AATAATAATTAT
4154123 AT-TAATTATATAGGTTAAATAATAATTAT
1 ATAT-ATT-TATA--TTAAATAATAATTAT
4154152 ATATATTTATATTAAAT
1 ATATATTTATATTAAAT
4154169 CATTAACCCA
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
25 1 0.03
26 9 0.23
27 1 0.03
28 8 0.21
29 16 0.41
30 4 0.10
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (26 bp):
ATATATTTATATTAAATAATAATTAT
Found at i:4166376 original size:11 final size:10
Alignment explanation
Indices: 4166354--4166386 Score: 50
Period size: 11 Copynumber: 3.3 Consensus size: 10
4166344 ATAATCTGGA
4166354 AAGAG-AAGG
1 AAGAGAAAGG
4166363 AAGAGAAGAGG
1 AAGAGAA-AGG
4166374 AAGAGAAAGG
1 AAGAGAAAGG
4166384 AAG
1 AAG
4166387 GATTACCTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 5 0.23
10 7 0.32
11 10 0.45
ACGTcount: A:0.58, C:0.00, G:0.42, T:0.00
Consensus pattern (10 bp):
AAGAGAAAGG
Found at i:4177121 original size:17 final size:17
Alignment explanation
Indices: 4177083--4177125 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
4177073 CTACGTCAAC
* *
4177083 AAAAAA-ATTTAAAATT
1 AAAAAATATTCAAAAAT
4177099 ATAAAAATATTCAAAAAT
1 A-AAAAATATTCAAAAAT
4177117 AAAAAATAT
1 AAAAAATAT
4177126 ATAAATAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 1 0.04
17 13 0.57
18 9 0.39
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (17 bp):
AAAAAATATTCAAAAAT
Found at i:4178534 original size:27 final size:27
Alignment explanation
Indices: 4178498--4178549 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
4178488 TAAACTTTGC
*
4178498 TTTTCAAATAAA-ATAAGTAGACTAATT
1 TTTTCAAATAAAGAAAAG-AGACTAATT
*
4178525 TTTTGAAATAAAGAAAAGAGACTAA
1 TTTTCAAATAAAGAAAAGAGACTAA
4178550 ATTTCAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 18 0.82
28 4 0.18
ACGTcount: A:0.52, C:0.06, G:0.12, T:0.31
Consensus pattern (27 bp):
TTTTCAAATAAAGAAAAGAGACTAATT
Found at i:4182183 original size:23 final size:24
Alignment explanation
Indices: 4182134--4182183 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 24
4182124 CCTTTTAATA
4182134 ATATATAATTTTTAATAATTTTCT
1 ATATATAATTTTTAATAATTTTCT
4182158 ATAT-TAAGTTTTT-ATGAATTTT-T
1 ATATATAA-TTTTTAAT-AATTTTCT
4182181 ATA
1 ATA
4182184 AGTTTTTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
23 9 0.38
24 15 0.62
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (24 bp):
ATATATAATTTTTAATAATTTTCT
Found at i:4182393 original size:21 final size:21
Alignment explanation
Indices: 4182347--4182393 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
4182337 AAATTTCAAG
*
4182347 ATTTTAATATATTTTTAAATA
1 ATTTTAATAAATTTTTAAATA
* **
4182368 CTTTTAATAAATTTTTTTATA
1 ATTTTAATAAATTTTTAAATA
4182389 ATTTT
1 ATTTT
4182394 TATGTGAAAA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (21 bp):
ATTTTAATAAATTTTTAAATA
Found at i:4182846 original size:20 final size:19
Alignment explanation
Indices: 4182802--4182855 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 19
4182792 TTTATAAATT
4182802 TTTTTATAA-TTTTCTATA
1 TTTTTATAAGTTTTCTATA
4182820 TTATTTATAAGTTTTC-ATCAA
1 TT-TTTATAAGTTTTCTAT--A
4182841 TTTTTATAAGCTTTT
1 TTTTTATAAG-TTTT
4182856 AAATATGTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
18 2 0.06
19 9 0.29
20 13 0.42
21 7 0.23
ACGTcount: A:0.28, C:0.07, G:0.04, T:0.61
Consensus pattern (19 bp):
TTTTTATAAGTTTTCTATA
Found at i:4183465 original size:19 final size:19
Alignment explanation
Indices: 4183441--4183496 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
4183431 TTTTCAATAA
*
4183441 TTTATAATTTTTTTAA-TT
1 TTTATAATTTTTATAAGTT
4183459 TTCTAT-ATTATTTATAAGTT
1 TT-TATAATT-TTTATAAGTT
4183479 TTTATGAATTTTTATAAG
1 TTTAT-AATTTTTATAAG
4183497 CCTTATATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
18 5 0.16
19 12 0.38
20 12 0.38
21 3 0.09
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.62
Consensus pattern (19 bp):
TTTATAATTTTTATAAGTT
Found at i:4183472 original size:28 final size:29
Alignment explanation
Indices: 4183440--4183494 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
4183430 TTTTTCAATA
*
4183440 ATTTATAA-TTTTT-TTAATTTTCTATATT
1 ATTTATAAGTTTTTATGAATTTT-TATATT
4183468 ATTTATAAGTTTTTATGAATTTTTATA
1 ATTTATAAGTTTTTATGAATTTTTATA
4183495 AGCCTTATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 8 0.33
29 9 0.38
30 7 0.29
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.64
Consensus pattern (29 bp):
ATTTATAAGTTTTTATGAATTTTTATATT
Found at i:4183490 original size:10 final size:9
Alignment explanation
Indices: 4183441--4183495 Score: 58
Period size: 9 Copynumber: 5.8 Consensus size: 9
4183431 TTTTCAATAA
4183441 TTTATAATT
1 TTTATAATT
*
4183450 TTTTTAATT
1 TTTATAATT
4183459 TTCTAT-ATT
1 TT-TATAATT
4183468 ATTTATAAGTT
1 -TTTATAA-TT
4183479 TTTATGAATT
1 TTTAT-AATT
4183489 TTTATAA
1 TTTATAA
4183496 GCCTTATATA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
9 18 0.46
10 17 0.44
11 4 0.10
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.64
Consensus pattern (9 bp):
TTTATAATT
Found at i:4183561 original size:22 final size:23
Alignment explanation
Indices: 4183535--4183593 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 23
4183525 TAAAATTATA
4183535 TATTTTATAATATTTTTAAT-AT
1 TATTTTATAATATTTTTAATAAT
*
4183557 TATTTT-TAAGTATTTCTAATAAT
1 TATTTTATAA-TATTTTTAATAAT
4183580 T-TTTTATAAT-TTTT
1 TATTTTATAATATTTT
4183594 ATGTGAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
21 6 0.19
22 20 0.62
23 6 0.19
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (23 bp):
TATTTTATAATATTTTTAATAAT
Found at i:4185922 original size:25 final size:30
Alignment explanation
Indices: 4185868--4185923 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 30
4185858 CATATTTGTA
4185868 TATATTAATTTATTATATGTTTATGATATT
1 TATATTAATTTATTATATGTTTATGATATT
4185898 TATATT-ATTT-TT-TAT-TTTATG-TATT
1 TATATTAATTTATTATATGTTTATGATATT
4185923 T
1 T
4185924 TTGTGTTGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
25 5 0.19
26 6 0.23
27 3 0.12
28 2 0.08
29 4 0.15
30 6 0.23
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (30 bp):
TATATTAATTTATTATATGTTTATGATATT
Found at i:4188422 original size:23 final size:24
Alignment explanation
Indices: 4188396--4188443 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
4188386 ATATGAATTT
4188396 TAAAATAAA-AAGTAAG-ACAATAA
1 TAAAATAAATAAGTAAGTA-AATAA
4188419 T-AAATAAATAAGTAAGTAAATAA
1 TAAAATAAATAAGTAAGTAAATAA
4188442 TA
1 TA
4188444 GTAAAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
22 7 0.32
23 14 0.64
24 1 0.05
ACGTcount: A:0.67, C:0.02, G:0.08, T:0.23
Consensus pattern (24 bp):
TAAAATAAATAAGTAAGTAAATAA
Found at i:4190071 original size:44 final size:44
Alignment explanation
Indices: 4190008--4190123 Score: 126
Period size: 44 Copynumber: 2.6 Consensus size: 44
4189998 TAGTGCTATG
* * * * * *
4190008 ATCTACTCCATTGTAACTTCAGGAAGATTAGGCTTGTAGCTTTA
1 ATCTACTCCACTGAAACTTCAGGAAGATGAGACTCGTAGCTTCA
*
4190052 ATCTACTCCACTGAAACTTCAAGG-AGATGAGACTCGTATCTTCA
1 ATCTACTCCACTGAAACTTC-AGGAAGATGAGACTCGTAGCTTCA
* * *
4190096 ATCTTCTTCACTGCAACTTCAGGAAGAT
1 ATCTACTCCACTGAAACTTCAGGAAGAT
4190124 AAGATTTGTG
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
43 3 0.05
44 54 0.90
45 3 0.05
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.32
Consensus pattern (44 bp):
ATCTACTCCACTGAAACTTCAGGAAGATGAGACTCGTAGCTTCA
Found at i:4190530 original size:234 final size:234
Alignment explanation
Indices: 4190141--4190694 Score: 723
Period size: 234 Copynumber: 2.4 Consensus size: 234
4190131 GTGGTTTGTA
** * * * *
4190141 GCTTTAATCTATTCTACTGCAACTTTAAGGAGATAAGATTTGCCACGATGACTTCAATCTATCCC
1 GCTTTAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTCGCCACGATGACTTCAATCCATCCC
* * * *
4190206 ATTGTAACTTCAGGGGAGATAAGACTTGTAACTTCAGTCTGCTCCACTATAACTTCAGAGAGATC
66 ACTGTAACTTCAGGGG-TATAAGACTTGTAACTTCAATCTGCTCCACTACAACTTCAGAGAGATC
* * * * *
4190271 AGATTTGTAATTTGTAGCTTTAATCTATTCCACTGTAACTTTAGGGAAATAAGATTCCCTATCTT
130 AAATTTGTAATTTGTAGCCTTAATCTATTCCACTGCAACTTTAAGGAAATAAGATTACCTATCTT
* * * *
4190336 CAGTCTACTCTACTGCAACTTCAGGGAGGTAAGACTTGTG
195 CAGTCCACTCCACTGCAACTTCAGGGAGATAAGACTTATG
* * * *
4190376 GGTTTAATTTGCTCCACTGTAACTTTAGGGAGATAAGATTCGCCACAATGACTTCAATCCATCCC
1 GCTTTAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTCGCCACGATGACTTCAATCCATCCC
* * * * * *
4190441 ACTATAACTTCAGGGGTATACA-ATTTGTAACTTTAATCTGCTCTACTGCAACTTTAGAGAGATC
66 ACTGTAACTTCAGGGGTATA-AGACTTGTAACTTCAATCTGCTCCACTACAACTTCAGAGAGATC
* *
4190505 AAATTTGTAATTTGTAGCCTTAATCTGTTCCACTGCAACTTTAAGGAAATAAGATTAGCTATCTT
130 AAATTTGTAATTTGTAGCCTTAATCTATTCCACTGCAACTTTAAGGAAATAAGATTACCTATCTT
* *
4190570 CAGTCCGCTCCACTGCAACTTCAGTGAGATAAGACTTATG
195 CAGTCCACTCCACTGCAACTTCAGGGAGATAAGACTTATG
* * * * * *
4190610 GCTTTAATCTGCTCCATTGCAACATCAGGGAGATAAGATTCACCATGGTGACTTCAATCCATCCC
1 GCTTTAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTCGCCACGATGACTTCAATCCATCCC
*
4190675 ACTGTAACTTCAGAGGTATA
66 ACTGTAACTTCAGGGGTATA
4190695 GGATTTGTGG
Statistics
Matches: 273, Mismatches: 45, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
234 203 0.74
235 70 0.26
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.32
Consensus pattern (234 bp):
GCTTTAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTCGCCACGATGACTTCAATCCATCCC
ACTGTAACTTCAGGGGTATAAGACTTGTAACTTCAATCTGCTCCACTACAACTTCAGAGAGATCA
AATTTGTAATTTGTAGCCTTAATCTATTCCACTGCAACTTTAAGGAAATAAGATTACCTATCTTC
AGTCCACTCCACTGCAACTTCAGGGAGATAAGACTTATG
Found at i:4194696 original size:13 final size:13
Alignment explanation
Indices: 4194656--4194698 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
4194646 ACATATTAAT
4194656 AATAATAATA-TA
1 AATAATAATAGTA
*
4194668 CAATAAAAATATGTA
1 -AATAATAATA-GTA
4194683 AATAATAATAGTA
1 AATAATAATAGTA
4194696 AAT
1 AAT
4194699 GGTAAAAAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
13 15 0.58
14 9 0.35
15 2 0.08
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (13 bp):
AATAATAATAGTA
Found at i:4199704 original size:63 final size:63
Alignment explanation
Indices: 4199605--4199732 Score: 256
Period size: 63 Copynumber: 2.0 Consensus size: 63
4199595 CAATTATCAC
4199605 GTTTACCCCTTGATCTGAATGACTGGGTAACGGATTTCTTGCCACATTAGGTCCTGATGGGTT
1 GTTTACCCCTTGATCTGAATGACTGGGTAACGGATTTCTTGCCACATTAGGTCCTGATGGGTT
4199668 GTTTACCCCTTGATCTGAATGACTGGGTAACGGATTTCTTGCCACATTAGGTCCTGATGGGTT
1 GTTTACCCCTTGATCTGAATGACTGGGTAACGGATTTCTTGCCACATTAGGTCCTGATGGGTT
4199731 GT
1 GT
4199733 CGAACTTTAC
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 65 1.00
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (63 bp):
GTTTACCCCTTGATCTGAATGACTGGGTAACGGATTTCTTGCCACATTAGGTCCTGATGGGTT
Found at i:4201284 original size:19 final size:19
Alignment explanation
Indices: 4201268--4201312 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
4201258 TTATGAAACT
*
4201268 TAATGCATATGATGAAATG
1 TAATGCAGATGATGAAATG
*
4201287 TAATGCAGATGAATAAAATG
1 TAATGCAGATG-ATGAAATG
4201307 -AATGCA
1 TAATGCA
4201313 AAAATGAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.47, C:0.07, G:0.20, T:0.27
Consensus pattern (19 bp):
TAATGCAGATGATGAAATG
Found at i:4204167 original size:13 final size:13
Alignment explanation
Indices: 4204149--4204188 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
4204139 GCTAGGCAGG
4204149 GACACGCCCGTGT
1 GACACGCCCGTGT
4204162 GACACGCCCGTGT
1 GACACGCCCGTGT
*
4204175 GACACGCCCATGT
1 GACACGCCCGTGT
4204188 G
1 G
4204189 CGATTGCTCC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.17, C:0.38, G:0.30, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:4206655 original size:18 final size:18
Alignment explanation
Indices: 4206619--4206661 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
4206609 TGAAATTTAA
*
4206619 AATAAAAAGTAAGACAAT
1 AATAAAAAGTAAGAAAAT
4206637 AATAAATAAGTAA-AAAAT
1 AATAAA-AAGTAAGAAAAT
*
4206655 AGTAAAA
1 AATAAAA
4206662 TATAAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 1 0.05
18 15 0.68
19 6 0.27
ACGTcount: A:0.70, C:0.02, G:0.09, T:0.19
Consensus pattern (18 bp):
AATAAAAAGTAAGAAAAT
Found at i:4213956 original size:17 final size:16
Alignment explanation
Indices: 4213934--4213980 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 16
4213924 CTTTGGGGAA
4213934 TAAAAAGAAAAAAAAAG
1 TAAAAA-AAAAAAAAAG
*
4213951 TAAAAAACCAAAAAAAG
1 TAAAAAA-AAAAAAAAG
4213968 TAAAAACAAAAAA
1 TAAAAA-AAAAAA
4213981 GTTTATGGTC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
16 1 0.04
17 24 0.92
18 1 0.04
ACGTcount: A:0.81, C:0.06, G:0.06, T:0.06
Consensus pattern (16 bp):
TAAAAAAAAAAAAAAG
Found at i:4214257 original size:24 final size:24
Alignment explanation
Indices: 4214221--4214273 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
4214211 AATGTTTTTT
*
4214221 GTAT-TATATATTTAAAAATGAAA
1 GTATATATATATTTAAAAAGGAAA
4214244 GTATATATATATTTAAAAAGGAAA
1 GTATATATATATTTAAAAAGGAAA
*
4214268 ATATAT
1 GTATAT
4214274 TTTTTTAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
23 4 0.15
24 23 0.85
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.38
Consensus pattern (24 bp):
GTATATATATATTTAAAAAGGAAA
Found at i:4216770 original size:39 final size:39
Alignment explanation
Indices: 4216708--4216808 Score: 157
Period size: 39 Copynumber: 2.6 Consensus size: 39
4216698 ATCGTGATCT
** * * *
4216708 GAAGCCCGAAATCTAGCTAAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAATGCTAAACG
4216747 GAAGCCCGAAGGCTAACTGAAGCACATAAATGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAATGCTAAACG
4216786 GAAGCCCGAAGGCTAACTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
4216809 TCATCAGAGT
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 57 1.00
ACGTcount: A:0.40, C:0.24, G:0.24, T:0.13
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACATAAATGCTAAACG
Found at i:4216790 original size:21 final size:21
Alignment explanation
Indices: 4216727--4216790 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 21
4216717 AATCTAGCTA
*
4216727 AAGCACATAAGTGCTAAACGG
1 AAGCACATAAATGCTAAACGG
** * *
4216748 AAGC-C-CGAAGGCT-AACTG
1 AAGCACATAAATGCTAAACGG
4216766 AAGCACATAAATGCTAAACGG
1 AAGCACATAAATGCTAAACGG
4216787 AAGC
1 AAGC
4216791 CCGAAGGCTA
Statistics
Matches: 31, Mismatches: 9, Indels: 6
0.67 0.20 0.13
Matches are distributed among these distances:
18 8 0.26
19 5 0.16
20 6 0.19
21 12 0.39
ACGTcount: A:0.42, C:0.22, G:0.23, T:0.12
Consensus pattern (21 bp):
AAGCACATAAATGCTAAACGG
Found at i:4224006 original size:20 final size:21
Alignment explanation
Indices: 4223971--4224009 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
4223961 CTTAATTGAC
*
4223971 TAACTGACATTAACTAACTTT
1 TAACTGACAATAACTAACTTT
4223992 TAACT-ACAATAACTAACT
1 TAACTGACAATAACTAACT
4224010 ACATTGCAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.44, C:0.21, G:0.03, T:0.33
Consensus pattern (21 bp):
TAACTGACAATAACTAACTTT
Found at i:4225356 original size:26 final size:26
Alignment explanation
Indices: 4225327--4225434 Score: 207
Period size: 26 Copynumber: 4.2 Consensus size: 26
4225317 TGATACAAAT
4225327 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
4225353 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
4225379 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
4225405 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
4225431 TGAT
1 TGAT
4225435 TGGAATTTCA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.31, C:0.06, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:4227469 original size:137 final size:137
Alignment explanation
Indices: 4227223--4227509 Score: 538
Period size: 137 Copynumber: 2.1 Consensus size: 137
4227213 GAGTAGTCTC
4227223 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
*
4227288 TGTTATCTGAATAAGGGGCTAAGGCCCGGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
*
4227353 ACTGTTA
131 ACCGTTA
4227360 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
4227425 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
4227490 ACCGTTA
131 ACCGTTA
**
4227497 CCTGAATGGGCTT
1 CCCAAATGGGCTT
4227510 AGGCCCAATA
Statistics
Matches: 146, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
137 146 1.00
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACCGTTA
Found at i:4229278 original size:20 final size:20
Alignment explanation
Indices: 4229255--4229293 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
4229245 CCCATGTATA
*
4229255 TATTATTATTACATTTATTT
1 TATTACTATTACATTTATTT
* *
4229275 TATTCCTATTATATTTATT
1 TATTACTATTACATTTATT
4229294 ATTAGTACAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (20 bp):
TATTACTATTACATTTATTT
Found at i:4229532 original size:15 final size:14
Alignment explanation
Indices: 4229482--4229532 Score: 50
Period size: 15 Copynumber: 3.6 Consensus size: 14
4229472 TATATGTCTG
4229482 TTATATATG-TATA
1 TTATATATGTTATA
* *
4229495 TTGTATATGTTCATT
1 TTATATATGTT-ATA
*
4229510 TTAAATATGTTATA
1 TTATATATGTTATA
4229524 TATATATAT
1 T-TATATAT
4229533 ATATATGTAT
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
13 8 0.28
14 4 0.14
15 17 0.59
ACGTcount: A:0.35, C:0.02, G:0.08, T:0.55
Consensus pattern (14 bp):
TTATATATGTTATA
Found at i:4231904 original size:28 final size:28
Alignment explanation
Indices: 4231873--4231930 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
4231863 TAAATTAAAT
4231873 AATTAATCCTATAAATTAACTCAATTCA
1 AATTAATCCTATAAATTAACTCAATTCA
* * *
4231901 AATTAATTCTATAAATTAATTTAATTCA
1 AATTAATCCTATAAATTAACTCAATTCA
4231929 AA
1 AA
4231931 AAACACTATG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (28 bp):
AATTAATCCTATAAATTAACTCAATTCA
Found at i:4231921 original size:13 final size:13
Alignment explanation
Indices: 4231873--4231921 Score: 53
Period size: 13 Copynumber: 3.6 Consensus size: 13
4231863 TAAATTAAAT
*
4231873 AATTAATCCTATA
1 AATTAATTCTATA
* *
4231886 AATTAACTCAATTCA
1 AATTAATTCTA-T-A
4231901 AATTAATTCTATA
1 AATTAATTCTATA
4231914 AATTAATT
1 AATTAATT
4231922 TAATTCAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
13 17 0.59
14 2 0.07
15 10 0.34
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (13 bp):
AATTAATTCTATA
Found at i:4231993 original size:20 final size:21
Alignment explanation
Indices: 4231968--4232006 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
4231958 GAAGTTATTT
4231968 CCATATTCACATG-TTTTTCC
1 CCATATTCACATGCTTTTTCC
4231988 CCATATTCACATGCTTTTT
1 CCATATTCACATGCTTTTT
4232007 TTTTTAGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.21, C:0.28, G:0.05, T:0.46
Consensus pattern (21 bp):
CCATATTCACATGCTTTTTCC
Found at i:4233790 original size:31 final size:30
Alignment explanation
Indices: 4233738--4233805 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 30
4233728 TAGACGTTAT
* * *
4233738 ACTATTACATAATATAATAATATAGTATTTA
1 ACTATTACATAAAATAATAATACA-TATATA
*
4233769 ACTATTAC-TAAAACTATTAATACATATATA
1 ACTATTACATAAAA-TAATAATACATATATA
4233799 ACTATTA
1 ACTATTA
4233806 TATTATAGAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
30 16 0.50
31 16 0.50
ACGTcount: A:0.49, C:0.10, G:0.01, T:0.40
Consensus pattern (30 bp):
ACTATTACATAAAATAATAATACATATATA
Found at i:4236234 original size:13 final size:13
Alignment explanation
Indices: 4236216--4236246 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
4236206 AATATATGGT
4236216 TAATAGAAATAAA
1 TAATAGAAATAAA
4236229 TAATAGAAATAAA
1 TAATAGAAATAAA
4236242 TAATA
1 TAATA
4236247 CACATGATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (13 bp):
TAATAGAAATAAA
Found at i:4236731 original size:14 final size:13
Alignment explanation
Indices: 4236701--4236792 Score: 67
Period size: 13 Copynumber: 7.5 Consensus size: 13
4236691 TAATATTGAA
* *
4236701 AATATATGTATAT
1 AATATATATAAAT
4236714 AATATATATAACAT
1 AATATATATAA-AT
4236728 AATAT-TA-AAAT
1 AATATATATAAAT
4236739 ACATATATAT-AAT
1 A-ATATATATAAAT
4236752 -ATATA-A-AAA-
1 AATATATATAAAT
*
4236761 AAT-TATATATAT
1 AATATATATAAAT
4236773 AATATA-ATAAAT
1 AATATATATAAAT
4236785 AAGTATAT
1 AA-TATAT
4236793 TACATACGCA
Statistics
Matches: 63, Mismatches: 4, Indels: 23
0.70 0.04 0.26
Matches are distributed among these distances:
9 2 0.03
10 6 0.10
11 10 0.16
12 16 0.25
13 22 0.35
14 7 0.11
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (13 bp):
AATATATATAAAT
Found at i:4236761 original size:24 final size:25
Alignment explanation
Indices: 4236715--4236783 Score: 86
Period size: 24 Copynumber: 2.8 Consensus size: 25
4236705 TATGTATATA
* **
4236715 ATATATATAACATAATATTAAAATAC
1 ATATATATAATATAATAAAAAAAT-C
*
4236741 ATATATATAATAT-ATAAAAAAATT
1 ATATATATAATATAATAAAAAAATC
4236765 ATATATATAATATAATAAA
1 ATATATATAATATAATAAA
4236784 TAAGTATATT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
24 13 0.34
25 13 0.34
26 12 0.32
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (25 bp):
ATATATATAATATAATAAAAAAATC
Found at i:4236791 original size:24 final size:24
Alignment explanation
Indices: 4236741--4236792 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
4236731 ATTAAAATAC
*
4236741 ATATATATAATATATAAAAAAATT
1 ATATATATAATATATAAAAAAAGT
*
4236765 ATATATATAATATA-ATAAATAAGT
1 ATATATATAATATATA-AAAAAAGT
4236789 ATAT
1 ATAT
4236793 TACATACGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 1 0.04
24 24 0.96
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (24 bp):
ATATATATAATATATAAAAAAAGT
Found at i:4236862 original size:9 final size:9
Alignment explanation
Indices: 4236832--4236864 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
4236822 ACACTAAGAC
4236832 ATATAATAA
1 ATATAATAA
*
4236841 ATACAATAA
1 ATATAATAA
4236850 ATATAATAA
1 ATATAATAA
4236859 ATATAA
1 ATATAA
4236865 ATATTATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (9 bp):
ATATAATAA
Found at i:4236864 original size:15 final size:16
Alignment explanation
Indices: 4236832--4236883 Score: 61
Period size: 15 Copynumber: 3.2 Consensus size: 16
4236822 ACACTAAGAC
4236832 ATATAATAAATACAATAA
1 ATATAATAAAT--AATAA
4236850 ATATAATAAAT-ATAA
1 ATATAATAAATAATAA
* *
4236865 ATATTATAATTAATAA
1 ATATAATAAATAATAA
4236881 ATA
1 ATA
4236884 ATAGAAAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
15 13 0.42
16 7 0.23
18 11 0.35
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (16 bp):
ATATAATAAATAATAA
Found at i:4236872 original size:18 final size:18
Alignment explanation
Indices: 4236832--4236881 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
4236822 ACACTAAGAC
*
4236832 ATATAATAAATACAATAA
1 ATATAATAAATAAAATAA
4236850 ATATAATAAATATAAAT-A
1 ATATAATAAATA-AAATAA
* *
4236868 TTATAATTAATAAA
1 ATATAATAAATAAA
4236882 TAATAGAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 2 0.07
18 23 0.82
19 3 0.11
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (18 bp):
ATATAATAAATAAAATAA
Found at i:4238743 original size:90 final size:87
Alignment explanation
Indices: 4238628--4239416 Score: 696
Period size: 90 Copynumber: 8.8 Consensus size: 87
4238618 AACATATACT
* * *
4238628 AAAAACAGAAATTGAAAATAGCTCAGCGCATGTGCC-AAGGCTCAACTTACTTCTCGCAATATGA
1 AAAAACAGAAATTGAAAATACCTCA--GCATGT-CCTAAGGCTCAACTCACCTCTCGCAATATGA
*
4238692 GTTGA-TTCTTGACAAACATAAATTTG
63 GTTGATTTTTTGA-AAACATAAA-TTG
* * *
4238718 AAAAGCAGAAACTGAAAATACCTCAGCATGTGAGCC-GAGGCTCAACTCACCTCTCGCAATATGA
1 AAAAACAGAAATTGAAAATACCTCAGCATGT---CCTAAGGCTCAACTCACCTCTCGCAATATGA
* *
4238782 GTTGATTTTTTTGAAAA-ATACAAATA
63 GTTGA-TTTTTTGAAAACATA-AATTG
* * *
4238808 AAAAACA-AAATTTGAAAATATCTCAGCGTGAACC-AAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAA-TTGAAAATACCTCAGCATG-TCCTAAGGCTCAACTCACCTCTCGCAATATGAG
*
4238871 TTGATTTTTTGAAAAATATAAATTG
64 TTGATTTTTTG-AAAACATAAATTG
* *
4238896 AAAGAACAGAAATTGAAAAATACCTCAGCACGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 AAA-AACAGAAATTG-AAAATACCTCAGCATGTCCTAAGGCTCAACTCACCTCTCGCAATATGAG
* *
4238961 TTGA--TTTTGAAAAGCAAAAATTA
64 TTGATTTTTTGAAAA-CATAAATTG
* ** * *
4238984 AAAAATAGATTTTGAAAATACCTCAGCATGTCCTAGGGCTCAACTCACCTCTAGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCATGTCCTAAGGCTCAACTCACCTCTCGCAATATGAGTT
*
4239049 GATTTTTTTGAAAAGCAGAAATTG
66 GA-TTTTTTGAAAA-CATAAATTG
* * * * *
4239073 AAAACCAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAATT
1 AAAAACAGAAATTGAAAATACCTCAGCATGTCCTAAGGCTCAACTCACCTCTCGCAATATGAGTT
*
4239138 GA-TTTTGGAAAA-ATAGAAATTG
66 GATTTTTTGAAAACAT--AAATTG
* ** * ** * * *
4239160 -AAAACAGAATTTGAACAATAGAATTTGAAAATACCTCGGCATATGACTCGAGGCTCAACTCACT
1 AAAAACAGAAATTGAA-AAT---ACCTCAGCAT--GTC--C-TA--A--G---GCTCAACTCACC
4239224 TCTCGCAATATGAGTTGA-TTTTTGAAAA-ATACATATT-
50 TCTCGCAATATGAGTTGATTTTTTGAAAACATA-A-ATTG
* *
4239261 AAAAACAGAATTTGAAAATACCTCAGC-TGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCATGTCCTAAGGCTCAACTCACCTCTCGCAATATGAGTT
*
4239325 GA-TTTTTGAAAACATGAATT-
66 GATTTTTTGAAAACATAAATTG
* *
4239345 AAAAACAGAAATTGAAAATACCTCGGCATG-CGAGCCAAGGCTCAACTCACCTCTCGCAATATGA
1 AAAAACAGAAATTGAAAATACCTCAGCATGTC---CTAAGGCTCAACTCACCTCTCGCAATATGA
4239409 GTTGATTT
63 GTTGATTT
4239417 CTGAAAGCAG
Statistics
Matches: 580, Mismatches: 75, Indels: 90
0.78 0.10 0.12
Matches are distributed among these distances:
84 29 0.05
85 43 0.07
86 64 0.11
87 69 0.12
88 66 0.11
89 89 0.15
90 134 0.23
91 5 0.01
92 9 0.02
93 1 0.00
94 1 0.00
95 3 0.01
97 2 0.00
98 3 0.01
100 1 0.00
101 4 0.01
102 57 0.10
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.27
Consensus pattern (87 bp):
AAAAACAGAAATTGAAAATACCTCAGCATGTCCTAAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTTGAAAACATAAATTG
Found at i:4238866 original size:178 final size:172
Alignment explanation
Indices: 4238628--4239422 Score: 799
Period size: 176 Copynumber: 4.4 Consensus size: 172
4238618 AACATATACT
* ** * *
4238628 AAAAACAGAAA-TTGAAAATAGCTCAGCGCATGTGCCAAGGCTCAACTTACTTCTCGCAATATGA
1 AAAAACAGAAATTTGAAAATACCTCAGCG--TGAACCAAGGCTCAACTCACCTCTCGCAATATGA
* * *
4238692 GTTGATTCTTGACAAACATAAATTTGAAAAGCAGAAACTGAAAATACCTCAGCATGTGAGCC-GA
64 GTTGATTTTTGA-AAACATAAA-TTGAAAAACAGAAATTGAAAATACCTCAGC-TGT---CCTGA
4238756 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATACAAA-TA
123 GGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAATA-AAATTA
*
4238808 AAAAACA-AAATTTGAAAATATCTCAGCGTGAACCAAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAAACAGAAATTTGAAAATACCTCAGCGTGAACCAAGGCTCAACTCACCTCTCGCAATATGAGT
* *
4238872 TGATTTTTTGAAAAATATAAATTGAAAGAACAGAAATTGAAAAATACCTCAGCACGTCCTGAGGC
66 TGA-TTTTTG-AAAACATAAATTGAAA-AACAGAAATTG-AAAATACCTCAGC-TGTCCTGAGGC
4238937 TCAACTCACCTCTCGCAATATGAGTTGA-TTTTGAAAAGCA-AAAATTA
126 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA--ATAAAATTA
* * * * * *
4238984 AAAAATAG-ATTTTGAAAATACCTCAGCATG-TCCTAGGGCTCAACTCACCTCTAGCAATATGAG
1 AAAAACAGAAATTTGAAAATACCTCAGCGTGAACC-AAGGCTCAACTCACCTCTCGCAATATGAG
* * *
4239047 TTGATTTTTTTGAAAAGCAGAAATTGAAAACCAGAAATTGAAATTACCTCAGCGTGTCCTGAGGC
65 TTGA--TTTTTGAAAA-CATAAATTGAAAAACAGAAATTGAAAATACCTCAGC-TGTCCTGAGGC
* *
4239112 TCAACTCACCTCTCGCAATATGAATTGATTTTGGAAAAATAGAAATTGAAAA
126 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATA-AAATT----A
* * * * *
4239164 CAGAATTTGAACAATAGAATTTGAAAATACCTCGGCAT-ATGACTCGAGGCTCAACTCACTTCTC
1 -A-AA----AAC-AGA-AATTTGAAAATACCTCAGCGTGA--AC-CAAGGCTCAACTCACCTCTC
*
4239228 GCAATATGAGTTGATTTTTGAAAA-ATACATATT-AAAAACAGAATTTGAAAATACCTCAGCTGT
55 GCAATATGAGTTGATTTTTGAAAACATA-A-ATTGAAAAACAGAAATTGAAAATACCTCAGCTGT
*
4239291 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAT-GAATT-
118 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA-ATAAAATTA
* * *
4239345 AAAAACAGAAA-TTGAAAATACCTCGGCATGCGAGCCAAGGCTCAACTCACCTCTCGCAATATGA
1 AAAAACAGAAATTTGAAAATACCTCAGC--GTGAACCAAGGCTCAACTCACCTCTCGCAATATGA
*
4239409 GTTGATTTCTGAAA
64 GTTGATTTTTGAAA
4239423 GCAGAAATAA
Statistics
Matches: 528, Mismatches: 48, Indels: 86
0.80 0.07 0.13
Matches are distributed among these distances:
172 56 0.11
173 3 0.01
174 3 0.01
175 68 0.13
176 86 0.16
177 20 0.04
178 74 0.14
179 27 0.05
180 42 0.08
181 1 0.00
182 2 0.00
186 6 0.01
187 50 0.09
188 27 0.05
189 32 0.06
191 30 0.06
192 1 0.00
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.27
Consensus pattern (172 bp):
AAAAACAGAAATTTGAAAATACCTCAGCGTGAACCAAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTGAAAACATAAATTGAAAAACAGAAATTGAAAATACCTCAGCTGTCCTGAGGCTCAAC
TCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAAAATTA
Found at i:4238898 original size:14 final size:14
Alignment explanation
Indices: 4238879--4238917 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
4238869 AGTTGATTTT
*
4238879 TTGAAAAATATAAA
1 TTGAAAAATAGAAA
*
4238893 TTGAAAGAACAGAAA
1 TTGAAA-AATAGAAA
4238908 TTGAAAAATA
1 TTGAAAAATA
4238918 CCTCAGCACG
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
14 9 0.43
15 12 0.57
ACGTcount: A:0.62, C:0.03, G:0.13, T:0.23
Consensus pattern (14 bp):
TTGAAAAATAGAAA
Found at i:4239075 original size:14 final size:14
Alignment explanation
Indices: 4239056--4239089 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
4239046 GTTGATTTTT
*
4239056 TTGAAAAGCAGAAA
1 TTGAAAACCAGAAA
4239070 TTGAAAACCAGAAA
1 TTGAAAACCAGAAA
4239084 TTGAAA
1 TTGAAA
4239090 TTACCTCAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.56, C:0.09, G:0.18, T:0.18
Consensus pattern (14 bp):
TTGAAAACCAGAAA
Found at i:4239182 original size:14 final size:13
Alignment explanation
Indices: 4239147--4239192 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
4239137 TGATTTTGGA
*
4239147 AAAATAGAAATTG
1 AAAATAGAATTTG
*
4239160 AAAACAGAATTTG
1 AAAATAGAATTTG
4239173 AACAATAGAATTTG
1 AA-AATAGAATTTG
4239187 AAAATA
1 AAAATA
4239193 CCTCGGCATA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
13 17 0.59
14 12 0.41
ACGTcount: A:0.59, C:0.04, G:0.13, T:0.24
Consensus pattern (13 bp):
AAAATAGAATTTG
Found at i:4239318 original size:187 final size:186
Alignment explanation
Indices: 4238985--4239364 Score: 516
Period size: 187 Copynumber: 2.0 Consensus size: 186
4238975 CAAAAATTAA
* * *
4238985 AAAATAGATTTTGAAAATACCTCAGCATGTCCTAGGGCTCAACTCACCTCTAGCAATATGAGTTG
1 AAAATAGAATTTGAAAATACCTCAGCATATACTAGGGCTCAACTCACCTCTAGCAATATGAGTTG
* * * *
4239050 ATTTTTTTGAAAAGCAGAAATTGAAAACCAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCA
66 A-TTTTTTGAAAAACACAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCA
* *
4239115 ACTCACCTCTCGCAATATGAATTGATTTTGGAAAA-ATAGAAATTGAAAACAGAATTTG
130 ACTCACCTCTCGCAATATGAATTGATTTTGGAAAACAT-G-AATTAAAAACAGAAATTG
* * * *
4239173 AACAATAGAATTTGAAAATACCTCGGCATATGACTCGAGGCTCAACTCACTTCTCGCAATATGAG
1 AA-AATAGAATTTGAAAATACCTCAGCATAT-ACTAG-GGCTCAACTCACCTCTAGCAATATGAG
* * *
4239238 TTGA-TTTTTGAAAAATACATATT-AAAAACAGAATTTGAAAATACCTCAGC-TGTCCTGAGGCT
63 TTGATTTTTTGAAAAACACAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCT
* *
4239300 CAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACATGAATTAAAAACAGAAATTG
128 CAACTCACCTCTCGCAATATGAATTGATTTTGGAAAACATGAATTAAAAACAGAAATTG
4239359 AAAATA
1 AAAATA
4239365 CCTCGGCATG
Statistics
Matches: 170, Mismatches: 18, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
185 4 0.02
186 18 0.11
187 48 0.28
188 28 0.16
189 40 0.24
190 3 0.02
191 29 0.17
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (186 bp):
AAAATAGAATTTGAAAATACCTCAGCATATACTAGGGCTCAACTCACCTCTAGCAATATGAGTTG
ATTTTTTGAAAAACACAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAA
CTCACCTCTCGCAATATGAATTGATTTTGGAAAACATGAATTAAAAACAGAAATTG
Found at i:4239409 original size:87 final size:86
Alignment explanation
Indices: 4239157--4239422 Score: 335
Period size: 85 Copynumber: 3.1 Consensus size: 86
4239147 AAAATAGAAA
* * **
4239157 TTGAAAACA-GAATTTGAACAATAGAATTTGAAAATACCTCGGCATATGACTCGAGGCTCAACTC
1 TTGAAAACATGAA-TT-AAAAACAGAATTTGAAAATACCTCGGCATGCGAC-CGAGGCTCAACTC
*
4239221 ACTTCTCGCAATATGAGTTGATTT
63 ACCTCTCGCAATATGAGTTGATTT
* * *
4239245 TTGAAAA-ATACATATTAAAAACAGAATTTGAAAATACCTCAGC-TGTC--CTGAGGCTCAACTC
1 TTGAAAACAT-GA-ATTAAAAACAGAATTTGAAAATACCTCGGCATG-CGACCGAGGCTCAACTC
4239306 ACCTCTCGCAATATGAGTTGATTT
63 ACCTCTCGCAATATGAGTTGATTT
* *
4239330 TTGAAAACATGAATTAAAAACAGAAATTGAAAATACCTCGGCATGCGAGCCAAGGCTCAACTCAC
1 TTGAAAACATGAATTAAAAACAGAATTTGAAAATACCTCGGCATGCGA-CCGAGGCTCAACTCAC
4239395 CTCTCGCAATATGAGTTGATTT
65 CTCTCGCAATATGAGTTGATTT
*
4239417 CTGAAA
1 TTGAAA
4239423 GCAGAAATAA
Statistics
Matches: 155, Mismatches: 14, Indels: 19
0.82 0.07 0.10
Matches are distributed among these distances:
84 29 0.19
85 45 0.29
86 3 0.02
87 43 0.28
88 31 0.20
89 3 0.02
90 1 0.01
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (86 bp):
TTGAAAACATGAATTAAAAACAGAATTTGAAAATACCTCGGCATGCGACCGAGGCTCAACTCACC
TCTCGCAATATGAGTTGATTT
Found at i:4252435 original size:14 final size:13
Alignment explanation
Indices: 4252405--4252497 Score: 58
Period size: 13 Copynumber: 7.5 Consensus size: 13
4252395 TAATATTGAA
* *
4252405 AATATATGTATAT
1 AATATATATAAAT
4252418 AATATATATAACAT
1 AATATATATAA-AT
4252432 AATAT-TA-AAAT
1 AATATATATAAAT
4252443 ACATATATAT-AAT
1 A-ATATATATAAAT
*
4252456 -ATATA-A-AAAA
1 AATATATATAAAT
*
4252466 AAT-TATATATAT
1 AATATATATAAAT
*
4252478 AATATA-ATACAT
1 AATATATATAAAT
4252490 AAGTATAT
1 AA-TATAT
4252498 TACATACGCA
Statistics
Matches: 63, Mismatches: 6, Indels: 21
0.70 0.07 0.23
Matches are distributed among these distances:
10 5 0.08
11 11 0.17
12 18 0.29
13 22 0.35
14 7 0.11
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.38
Consensus pattern (13 bp):
AATATATATAAAT
Found at i:4252567 original size:9 final size:9
Alignment explanation
Indices: 4252537--4252569 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
4252527 ACACTAAGAC
4252537 ATATAATAA
1 ATATAATAA
*
4252546 ATACAATAA
1 ATATAATAA
4252555 ATATAATAA
1 ATATAATAA
4252564 ATATAA
1 ATATAA
4252570 ATATTATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (9 bp):
ATATAATAA
Found at i:4252569 original size:15 final size:16
Alignment explanation
Indices: 4252537--4252588 Score: 61
Period size: 15 Copynumber: 3.2 Consensus size: 16
4252527 ACACTAAGAC
4252537 ATATAATAAATACAATAA
1 ATATAATAAAT--AATAA
4252555 ATATAATAAAT-ATAA
1 ATATAATAAATAATAA
* *
4252570 ATATTATAATTAATAA
1 ATATAATAAATAATAA
4252586 ATA
1 ATA
4252589 ACAGAAAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
15 13 0.42
16 7 0.23
18 11 0.35
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (16 bp):
ATATAATAAATAATAA
Found at i:4252577 original size:18 final size:18
Alignment explanation
Indices: 4252537--4252586 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
4252527 ACACTAAGAC
*
4252537 ATATAATAAATACAATAA
1 ATATAATAAATAAAATAA
4252555 ATATAATAAATATAAAT-A
1 ATATAATAAATA-AAATAA
* *
4252573 TTATAATTAATAAA
1 ATATAATAAATAAA
4252587 TAACAGAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 2 0.07
18 23 0.82
19 3 0.11
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (18 bp):
ATATAATAAATAAAATAA
Found at i:4253266 original size:12 final size:12
Alignment explanation
Indices: 4253233--4253266 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
4253223 TAGAATATGG
4253233 GAGAAAAAAAAA
1 GAGAAAAAAAAA
4253245 GA-AAAGAAAAAA
1 GAGAAA-AAAAAA
4253257 GAGAAAAAAA
1 GAGAAAAAAA
4253267 CAGATTCGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 3 0.15
12 14 0.70
13 3 0.15
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (12 bp):
GAGAAAAAAAAA
Found at i:4255298 original size:41 final size:41
Alignment explanation
Indices: 4255253--4255334 Score: 110
Period size: 41 Copynumber: 2.0 Consensus size: 41
4255243 TGGCTCAATT
* **
4255253 TGGTCGGTTGAGTCAGTTTTAATTGCTAACTATAATAGATG
1 TGGTCAGTTGAGTCAGTTTTAATCACTAACTATAATAGATG
* **
4255294 TGGTCAGTTGATTTGGTTTTAATCACTAACTATAATAGATG
1 TGGTCAGTTGAGTCAGTTTTAATCACTAACTATAATAGATG
4255335 ATATTATATT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.28, C:0.10, G:0.22, T:0.40
Consensus pattern (41 bp):
TGGTCAGTTGAGTCAGTTTTAATCACTAACTATAATAGATG
Found at i:4255716 original size:27 final size:26
Alignment explanation
Indices: 4255686--4255737 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
4255676 GCTTTCCTAT
4255686 AATTAGTAATA-CATAAAAAATTATTAA
1 AATT-GTAATATCATAAAAAA-TATTAA
* *
4255713 AATTTTAATATCTTAAAAAATATTA
1 AATTGTAATATCATAAAAAATATTA
4255738 TTTTTATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
26 10 0.45
27 12 0.55
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (26 bp):
AATTGTAATATCATAAAAAATATTAA
Found at i:4257412 original size:24 final size:22
Alignment explanation
Indices: 4257377--4257421 Score: 63
Period size: 24 Copynumber: 2.0 Consensus size: 22
4257367 TATATTTGAG
*
4257377 TTTTTTATTTTATTATCTTTTTAA
1 TTTTTTAATTTA-TAT-TTTTTAA
4257401 TTTTTTAATTTATATTTTTTA
1 TTTTTTAATTTATATTTTTTA
4257422 TTACATCATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 6 0.30
23 3 0.15
24 11 0.55
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (22 bp):
TTTTTTAATTTATATTTTTTAA
Found at i:4260602 original size:17 final size:17
Alignment explanation
Indices: 4260576--4260718 Score: 130
Period size: 17 Copynumber: 8.4 Consensus size: 17
4260566 GAGATTTTTT
4260576 TTTTTGAAAACACGAAAA
1 TTTTT-AAAACACGAAAA
*
4260594 TTTTCAAAACACCG-AAA
1 TTTTTAAAACA-CGAAAA
* **
4260611 TTTTTGAAAACAAGAGGA
1 TTTTT-AAAACACGAAAA
* *
4260629 TTTTTGAAATACGAAAAA
1 TTTTTAAAACACG-AAAA
*
4260647 TTTTGAAAACACGAAAA
1 TTTTTAAAACACGAAAA
* *
4260664 TTTTTGAAACACGGAAA
1 TTTTTAAAACACGAAAA
*
4260681 TTTTTGAAA-ACGAAAA
1 TTTTTAAAACACGAAAA
*
4260697 TTTTTGAAACAC-AAAA
1 TTTTTAAAACACGAAAA
4260713 TTTTTA
1 TTTTTA
4260719 GAAGACACTA
Statistics
Matches: 102, Mismatches: 18, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
16 24 0.24
17 48 0.47
18 30 0.29
ACGTcount: A:0.47, C:0.10, G:0.12, T:0.31
Consensus pattern (17 bp):
TTTTTAAAACACGAAAA
Found at i:4260620 original size:35 final size:34
Alignment explanation
Indices: 4260576--4260737 Score: 175
Period size: 35 Copynumber: 4.7 Consensus size: 34
4260566 GAGATTTTTT
**
4260576 TTTTTGAAAACACGAAAATTTTCAAAACACCGAAA
1 TTTTTGAAAACACGAAAATTTTTGAAACA-CGAAA
* ** *
4260611 TTTTTGAAAACAAGAGGATTTTTGAAATACGAAAA
1 TTTTTGAAAACACGAAAATTTTTGAAACACG-AAA
*
4260646 ATTTTGAAAACACGAAAATTTTTGAAACACGGAAA
1 TTTTTGAAAACACGAAAATTTTTGAAACAC-GAAA
*
4260681 TTTTTG-AAA-ACGAAAATTTTTGAAACACAAAA
1 TTTTTGAAAACACGAAAATTTTTGAAACACGAAA
* * *
4260713 TTTTTAGAAGACACTAAAAATTTTG
1 TTTTT-GAAAACACGAAAATTTTTG
4260738 GAAAATGGAT
Statistics
Matches: 106, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
32 8 0.08
33 20 0.19
34 7 0.07
35 70 0.66
36 1 0.01
ACGTcount: A:0.47, C:0.10, G:0.12, T:0.30
Consensus pattern (34 bp):
TTTTTGAAAACACGAAAATTTTTGAAACACGAAA
Found at i:4260952 original size:20 final size:19
Alignment explanation
Indices: 4260914--4260960 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
4260904 GAATATATTT
4260914 TTTTTGAAACACGAGAAAAA
1 TTTTTGAAACACG-GAAAAA
*
4260934 TTTTTGAAGGCAC-GAAAAA
1 TTTTTGAA-ACACGGAAAAA
4260953 -TTTTGAAA
1 TTTTTGAAA
4260961 AATAGAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
18 7 0.29
19 6 0.25
20 8 0.33
21 3 0.12
ACGTcount: A:0.45, C:0.09, G:0.17, T:0.30
Consensus pattern (19 bp):
TTTTTGAAACACGGAAAAA
Found at i:4261157 original size:17 final size:16
Alignment explanation
Indices: 4261123--4261173 Score: 57
Period size: 17 Copynumber: 3.0 Consensus size: 16
4261113 AAAATTATTT
4261123 AAAATAAAATAAAATA
1 AAAATAAAATAAAATA
* *
4261139 AAAATCAAATTAAATTA
1 AAAAT-AAAATAAAATA
4261156 AAAATATAAATATAAATA
1 AAAATA-AAATA-AAATA
4261174 TGCATAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
16 6 0.21
17 18 0.64
18 4 0.14
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (16 bp):
AAAATAAAATAAAATA
Found at i:4261317 original size:11 final size:11
Alignment explanation
Indices: 4261301--4261366 Score: 64
Period size: 11 Copynumber: 6.1 Consensus size: 11
4261291 GAATTGAACC
4261301 TCTTTTTTTTT
1 TCTTTTTTTTT
4261312 TC--TTTTTTT
1 TCTTTTTTTTT
* *
4261321 CCTTCTTTTTT
1 TCTTTTTTTTT
* * *
4261332 CCTTCTCTTTT
1 TCTTTTTTTTT
4261343 TCTTTTTTCTTT
1 TCTTTTTT-TTT
4261355 TCTTTTTTTTT
1 TCTTTTTTTTT
4261366 T
1 T
4261367 TGCTGGCCAA
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
9 8 0.17
11 27 0.59
12 11 0.24
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (11 bp):
TCTTTTTTTTT
Found at i:4261320 original size:12 final size:12
Alignment explanation
Indices: 4261303--4261367 Score: 60
Period size: 13 Copynumber: 5.2 Consensus size: 12
4261293 ATTGAACCTC
4261303 TTTTTTTTTTCT
1 TTTTTTTTTTCT
**
4261315 TTTTTTCCTTCT
1 TTTTTTTTTTCT
* *
4261327 TTTTTCCTTCTCT
1 TTTTT-TTTTTCT
4261340 TTTTCTTTTTTCT
1 TTTT-TTTTTTCT
4261353 TTTCTTTTTTT-T
1 TTT-TTTTTTTCT
4261365 TTT
1 TTT
4261368 GCTGGCCAAC
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
12 19 0.45
13 21 0.50
14 2 0.05
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (12 bp):
TTTTTTTTTTCT
Found at i:4261331 original size:19 final size:17
Alignment explanation
Indices: 4261303--4261367 Score: 62
Period size: 19 Copynumber: 3.6 Consensus size: 17
4261293 ATTGAACCTC
4261303 TTTT-TTTTTTCTTTTT
1 TTTTCTTTTTTCTTTTT
*
4261319 TTCCTTCTTTTTTCCTTCTCT
1 TT--TTCTTTTTT-CTT-TTT
4261340 TTTTCTTTTTTCTTTTCT
1 TTTTCTTTTTTCTTTT-T
4261358 TTTT-TTTTTT
1 TTTTCTTTTTT
4261368 GCTGGCCAAC
Statistics
Matches: 41, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
16 2 0.05
17 7 0.17
18 10 0.24
19 15 0.37
20 3 0.07
21 4 0.10
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (17 bp):
TTTTCTTTTTTCTTTTT
Found at i:4261348 original size:18 final size:17
Alignment explanation
Indices: 4261326--4261366 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
4261316 TTTTTCCTTC
4261326 TTTTTTCCTTCTCTTTT
1 TTTTTTCCTTCTCTTTT
* *
4261343 TCTTTTTTCTTTTCTTTT
1 T-TTTTTCCTTCTCTTTT
4261361 TTTTTT
1 TTTTTT
4261367 TGCTGGCCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (17 bp):
TTTTTTCCTTCTCTTTT
Found at i:4261640 original size:13 final size:14
Alignment explanation
Indices: 4261615--4261673 Score: 65
Period size: 13 Copynumber: 4.6 Consensus size: 14
4261605 TTTTTATTAT
*
4261615 TTCTT-TTTTTTTC
1 TTCTTCTTTCTTTC
4261628 TT-TTCTTTCTTTC
1 TTCTTCTTTCTTTC
*
4261641 TT-TTCTCTCTTTC
1 TTCTTCTTTCTTTC
4261654 TTCTTC-TTC-TTC
1 TTCTTCTTTCTTTC
4261666 TTCTTCTT
1 TTCTTCTT
4261674 CTTCTTCAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
12 11 0.28
13 26 0.65
14 3 0.08
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (14 bp):
TTCTTCTTTCTTTC
Found at i:4261659 original size:3 final size:3
Alignment explanation
Indices: 4261625--4261680 Score: 62
Period size: 3 Copynumber: 18.0 Consensus size: 3
4261615 TTCTTTTTTT
4261625 TTC TT- TTC TTTC TTTC TT- TTC TCTC TTTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC -TTC -TTC TTC TTC T-TC -TTC TTC TTC TTC TTC TTC TTC
4261672 TTC TTC TTC
1 TTC TTC TTC
4261681 AAAGTCTAGC
Statistics
Matches: 48, Mismatches: 0, Indels: 10
0.83 0.00 0.17
Matches are distributed among these distances:
2 4 0.08
3 32 0.67
4 11 0.23
5 1 0.02
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (3 bp):
TTC
Found at i:4261791 original size:19 final size:20
Alignment explanation
Indices: 4261753--4261791 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
4261743 CCGCCGACTC
4261753 CTCCTCTCTCTTCCTTCTTCT
1 CTCCTCTCTCTT-CTTCTTCT
*
4261774 CTCCTTTCTCTT-TTCTTC
1 CTCCTCTCTCTTCTTCTTC
4261792 CTATTTCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
21 11 0.65
ACGTcount: A:0.00, C:0.44, G:0.00, T:0.56
Consensus pattern (20 bp):
CTCCTCTCTCTTCTTCTTCT
Found at i:4262101 original size:28 final size:29
Alignment explanation
Indices: 4262040--4262152 Score: 115
Period size: 29 Copynumber: 3.9 Consensus size: 29
4262030 TGTAATTTTT
* * *
4262040 AGAAAATTTAGGATTAAAATGAAATTTAA
1 AGAAAGTTTAGGGTCAAAATGAAATTTAA
* * *
4262069 TGAAAGTTTAGGGTCTAAGT-AAATTTAA
1 AGAAAGTTTAGGGTCAAAATGAAATTTAA
4262097 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAGTTT-AGGGTCAAAATGAAATTTAA
* *
4262126 GGAAAAGTTTAGGG-CAAAATGCAATTT
1 AG-AAAGTTTAGGGTCAAAATGAAATTT
4262153 TATTTTTTAA
Statistics
Matches: 70, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
28 28 0.40
29 29 0.41
30 13 0.19
ACGTcount: A:0.46, C:0.04, G:0.20, T:0.30
Consensus pattern (29 bp):
AGAAAGTTTAGGGTCAAAATGAAATTTAA
Found at i:4262546 original size:50 final size:51
Alignment explanation
Indices: 4262421--4262622 Score: 291
Period size: 50 Copynumber: 3.8 Consensus size: 51
4262411 CACGTGAGCC
* *
4262421 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAACAGAATTTGCAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAATAGAA--T--AA
4262476 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAATAG-A-AA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAATAGAATAA
*
4262526 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAATAG-AA-TAA
4262580 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA
4262623 ACAGAAATTG
Statistics
Matches: 137, Mismatches: 4, Indels: 14
0.88 0.03 0.09
Matches are distributed among these distances:
49 6 0.04
50 41 0.30
52 1 0.01
53 4 0.03
54 40 0.29
55 33 0.24
56 12 0.09
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.30
Consensus pattern (51 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAATAGAATAA
Found at i:4262606 original size:54 final size:53
Alignment explanation
Indices: 4262421--4262636 Score: 305
Period size: 54 Copynumber: 4.1 Consensus size: 53
4262411 CACGTGAGCC
* *
4262421 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAACAGAATTTGCAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATT--AA
*
4262476 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAATAG--A--AA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAACAGAAATTAA
* *
4262526 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAACAGAAATTAA
*
4262580 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAACAGAAATTAA
4262634 AAG
1 AAG
4262637 TAGAAATTGA
Statistics
Matches: 148, Mismatches: 7, Indels: 13
0.88 0.04 0.08
Matches are distributed among these distances:
49 6 0.04
50 41 0.28
52 1 0.01
54 56 0.38
55 32 0.22
56 12 0.08
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.29
Consensus pattern (53 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTAA
Found at i:4262629 original size:104 final size:104
Alignment explanation
Indices: 4262421--4262629 Score: 332
Period size: 104 Copynumber: 2.0 Consensus size: 104
4262411 CACGTGAGCC
* *
4262421 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAACAGAATTTGCAAAAGGCTCAAC
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATT-CAAAAGGCTCAAC
*
4262486 TCACCTCTCGCAATATGAGTTGATTTTTTGAAAATAGAAA
65 TCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAA
* *
4262526 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATT-AAAAGGCTCAAC
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAACAGAAATTCAAAAGGCTCAAC
4262590 TCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAA
65 TCACCTCTCGCAATATGAGTTGATTTTTTG-AAAACAGAAA
4262630 TTGAAAGTAG
Statistics
Matches: 97, Mismatches: 5, Indels: 5
0.91 0.05 0.05
Matches are distributed among these distances:
103 6 0.06
104 44 0.45
105 37 0.38
106 10 0.10
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.29
Consensus pattern (104 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTCAAAAGGCTCAACT
CACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAA
Found at i:4262743 original size:13 final size:13
Alignment explanation
Indices: 4262725--4262754 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
4262715 GAAATTAAAA
4262725 AAAACAGAAATTG
1 AAAACAGAAATTG
*
4262738 AAAACAGAATTTG
1 AAAACAGAAATTG
4262751 AAAA
1 AAAA
4262755 GACCTCAGCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.63, C:0.07, G:0.13, T:0.17
Consensus pattern (13 bp):
AAAACAGAAATTG
Found at i:4262897 original size:87 final size:89
Alignment explanation
Indices: 4262738--4262991 Score: 308
Period size: 91 Copynumber: 2.9 Consensus size: 89
4262728 ACAGAAATTG
* *
4262738 AAAACAGAATTTGAAAAGACCTCAGCGTGTGGCCTG-GGACTCAACTCACCTCTTGCAATATGAG
1 AAAACAGAAATTGAAAATACCTCAGC-TGTGGCCTGAGG-CTCAACTCACCTCTTGCAATATGAG
* **
4262802 TTG--GTTTGAAAAG-TAGAATT-AGT
64 TTGATTTTTGAAAAGATAG-ATTGAAA
* * *
4262825 AAAGCAGAAATTGAAAATACCTCAGC-GT-GCCTTGAGGCTCAACTCACCTCTCGCAATATAAGT
1 AAAACAGAAATTGAAAATACCTCAGCTGTGGCC-TGAGGCTCAACTCACCTCTTGCAATATGAGT
4262888 TGATTTTTGAAAAGCATAGATTGAAA
65 TGATTTTTGAAAAG-ATAGATTGAAA
*
4262914 AAAACATAAATTGAAAATACCTCAGCATGTGAGCC-GAGGCTCAACTCACCTCTTGCAATATGAG
1 AAAACAGAAATTGAAAATACCTCAGC-TGTG-GCCTGAGGCTCAACTCACCTCTTGCAATATGAG
4262978 TTGATTTTTGAAAA
64 TTGATTTTTGAAAA
4262992 ACAAAAATTA
Statistics
Matches: 144, Mismatches: 12, Indels: 18
0.83 0.07 0.10
Matches are distributed among these distances:
84 3 0.02
85 30 0.21
86 2 0.01
87 32 0.22
88 3 0.02
89 28 0.19
91 43 0.30
93 3 0.02
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (89 bp):
AAAACAGAAATTGAAAATACCTCAGCTGTGGCCTGAGGCTCAACTCACCTCTTGCAATATGAGTT
GATTTTTGAAAAGATAGATTGAAA
Found at i:4262930 original size:15 final size:16
Alignment explanation
Indices: 4262897--4262930 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4262887 TTGATTTTTG
* *
4262897 AAAAGCATAGATTGAA
1 AAAAACATAAATTGAA
4262913 AAAAACATAAATTGAA
1 AAAAACATAAATTGAA
4262929 AA
1 AA
4262931 TACCTCAGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.65, C:0.06, G:0.12, T:0.18
Consensus pattern (16 bp):
AAAAACATAAATTGAA
Found at i:4263181 original size:124 final size:125
Alignment explanation
Indices: 4262947--4263235 Score: 487
Period size: 124 Copynumber: 2.3 Consensus size: 125
4262937 AGCATGTGAG
* *
4262947 CCGAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTGAAAAACAAAAATTAAAAGGCTTAA
1 CCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTAAAAGGCTTAA
4263012 CTCACCTCTCGCAAATATGAGTCAATTTAAAACATAAAACTAAAAATACCTC-GCATGCC
66 CTCACCTCTCGCAAATATGAGTCAATTTAAAACATAAAACTAAAAATACCTCGGCATGCC
*
4263071 CCGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTG-AAAACACAAAATTAAAAGGCTTA
1 CCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAACA-AAAATTAAAAGGCTTA
*
4263135 ACTCACCTCTCGC-AATATGAGTCAATTTAAAACAT-AAACTAAAAAAATACCTCGGCGTGCC
65 ACTCACCTCTCGCAAATATGAGTCAATTTAAAACATAAAACT--AAAAATACCTCGGCATGCC
4263196 CCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTT
1 CCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTT
4263236 TTTAAAAAAT
Statistics
Matches: 156, Mismatches: 5, Indels: 7
0.93 0.03 0.04
Matches are distributed among these distances:
122 5 0.03
123 28 0.18
124 78 0.50
125 45 0.29
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.27
Consensus pattern (125 bp):
CCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTAAAAGGCTTAA
CTCACCTCTCGCAAATATGAGTCAATTTAAAACATAAAACTAAAAATACCTCGGCATGCC
Found at i:4263492 original size:191 final size:191
Alignment explanation
Indices: 4263073--4263878 Score: 1519
Period size: 191 Copynumber: 4.2 Consensus size: 191
4263063 CGCATGCCCC
4263073 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTG-AAAACACAAAATTAAAAGGCTTAAC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGA-TTTTGAAAAACA-AAAATTAAAAGGCTTAAC
4263137 TCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAAAATACCTCGGCGTGCCCCGAGG
64 TCACCTCTCGCAATATGAGTCAATTTAAAACATAAACT--AAAAATACCTCGGCGTGCCCCGAGG
4263202 CTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTTAAAAAATTTAAAAATACCTCAACGTGTC
127 CTCAACTCACTTCTCGCAATATGAGTTGA--TTTTTTAAAAAATTTAAAAATACCTCAACGTGTC
4263267 TT
190 TT
4263269 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
4263334 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTC-GCGTGCCCCGAGGCTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
4263398 ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
131 ACTCACTTCTCGCAATATGAGTTGA-TTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
4263460 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
4263525 ACCTCTCGCAATATGAGTCAATTTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTC
66 ACCTCTCGCAATATGAGTCAA-TTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTC
4263590 AACTCACTTCTCGCAATATGAGTTGATTTTTTAAAAAA-TTAAAAATACCTCAACGTGTCTT
130 AACTCACTTCTCGCAATATGAGTTGATTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
4263651 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
4263716 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
4263781 ACTCACTTCTCGCAATATGAGTTGATTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
131 ACTCACTTCTCGCAATATGAGTTGATTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
4263842 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTT
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTT
4263879 CCTTGGAAAG
Statistics
Matches: 606, Mismatches: 0, Indels: 13
0.98 0.00 0.02
Matches are distributed among these distances:
190 81 0.13
191 292 0.48
192 80 0.13
193 53 0.09
195 61 0.10
196 39 0.06
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (191 bp):
GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
ACTCACTTCTCGCAATATGAGTTGATTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
Found at i:4263533 original size:123 final size:123
Alignment explanation
Indices: 4263391--4263619 Score: 309
Period size: 123 Copynumber: 1.9 Consensus size: 123
4263381 GCGTGCCCCG
* * * * **
4263391 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTAAA-A-AATTTAAAAATACCTCAACG
1 AGGCTCAACTCACCTCTCGCAATATGAG-TCA-ATTTTAAAACATAAACTAAAAATACCTCAACG
* ** *
4263454 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
64 TGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
* **
4263514 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTTAAAACATAAACTAAAAATACCTCGGCGTG
1 AGGCTCAACTCACCTCTCGCAATATGAGTCAATTTTAAAACATAAACTAAAAATACCTCAACGTG
4263579 CCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT
66 CCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT
4263620 TTAAAAAATT
Statistics
Matches: 91, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
121 7 0.08
122 3 0.03
123 81 0.89
ACGTcount: A:0.34, C:0.21, G:0.14, T:0.31
Consensus pattern (123 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTCAATTTTAAAACATAAACTAAAAATACCTCAACGTG
CCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
Found at i:4263669 original size:68 final size:70
Alignment explanation
Indices: 4263514--4263692 Score: 218
Period size: 68 Copynumber: 2.6 Consensus size: 70
4263504 AAAAATTAAA
* * ** **
4263514 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTTAAAACATAAACTAAAAATACCTCGGCGTG
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACATAAACTAAAAATACCTCAACGTG
4263579 CCCCG
66 CCCCG
** *
4263584 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTAA-A-AAATTAAAAATACCTCAACGTG
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACATAAACTAAAAATACCTCAACGTG
* **
4263647 TCTTG
66 CCCCG
*
4263652 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAA
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT-AAAA
4263693 ACAAAAATTA
Statistics
Matches: 93, Mismatches: 15, Indels: 3
0.84 0.14 0.03
Matches are distributed among these distances:
68 56 0.60
69 3 0.03
70 34 0.37
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.30
Consensus pattern (70 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACATAAACTAAAAATACCTCAACGTG
CCCCG
Found at i:4263800 original size:122 final size:121
Alignment explanation
Indices: 4263584--4263809 Score: 310
Period size: 122 Copynumber: 1.9 Consensus size: 121
4263574 GCGTGCCCCG
* * * ** * *
4263584 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTAAAAAATTAAAAATACCTCAACGTGTC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTCAATTTAAAAAAAACTAAAAATACCTCAACGTGCC
** *
4263649 TTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
66 CCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
* **
4263705 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTTAAAACATAAACTAAAAATACCTCGGCGTG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTCAATTTAAAA-A-AAACTAAAAATACCTCAACGTG
4263769 CCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT
64 CCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT
4263810 TTAAAAAATT
Statistics
Matches: 90, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
120 7 0.08
121 27 0.30
122 56 0.62
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (121 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTCAATTTAAAAAAAACTAAAAATACCTCAACGTGCC
CCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
Found at i:4275620 original size:17 final size:17
Alignment explanation
Indices: 4275594--4275737 Score: 130
Period size: 17 Copynumber: 8.4 Consensus size: 17
4275584 CGAGATTTTT
4275594 TTTTTGAAAACACGAAAA
1 TTTTT-AAAACACGAAAA
*
4275612 TTTTCAAAACACCG-AAA
1 TTTTTAAAACA-CGAAAA
* **
4275629 TTTTTGAAAACAAGAGGA
1 TTTTT-AAAACACGAAAA
* *
4275647 TTTTTGAAATACGAAAAA
1 TTTTTAAAACACG-AAAA
*
4275665 TTTTGAAAACACGAAAA
1 TTTTTAAAACACGAAAA
* *
4275682 TTTTTGAAACACGGAAA
1 TTTTTAAAACACGAAAA
*
4275699 TTTTTGAAA-ACGAAAA
1 TTTTTAAAACACGAAAA
* *
4275715 TTTTTGAAACACAAAAA
1 TTTTTAAAACACGAAAA
4275732 TTTTTA
1 TTTTTA
4275738 GAAGACACTA
Statistics
Matches: 102, Mismatches: 19, Indels: 11
0.77 0.14 0.08
Matches are distributed among these distances:
16 15 0.15
17 57 0.56
18 30 0.29
ACGTcount: A:0.47, C:0.10, G:0.12, T:0.31
Consensus pattern (17 bp):
TTTTTAAAACACGAAAA
Found at i:4275622 original size:39 final size:38
Alignment explanation
Indices: 4275505--4275633 Score: 115
Period size: 36 Copynumber: 3.4 Consensus size: 38
4275495 GATCCGATTG
* *
4275505 AAACACGAGAATTTCTTGTTTTGAAAACACGAGAATTTTA
1 AAACACGAG-ATTT-TTTTTTTGAAAACACGAAAATTTTA
* * * *
4275545 AGACA-TA-ATATTTTTTTT-AAAAC-C-AAAATTTATG
1 AAACACGAGATTTTTTTTTTGAAAACACGAAAATTT-TA
4275579 AAACACGAGATTTTTTTTTTGAAAACACGAAAATTTTCA
1 AAACACGAGATTTTTTTTTTGAAAACACGAAAATTTT-A
*
4275618 AAACACCGAAATTTTT
1 AAACA-CGAGATTTTT
4275634 GAAAACAAGA
Statistics
Matches: 70, Mismatches: 11, Indels: 16
0.72 0.11 0.16
Matches are distributed among these distances:
33 6 0.09
34 6 0.09
35 6 0.09
36 16 0.23
37 8 0.11
38 2 0.03
39 13 0.19
40 13 0.19
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.36
Consensus pattern (38 bp):
AAACACGAGATTTTTTTTTTGAAAACACGAAAATTTTA
Done.