Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 339 of 410
Found at i:104701301 original size:15 final size:15
Alignment explanation
Indices: 104701275--104701355 Score: 87
Period size: 15 Copynumber: 5.5 Consensus size: 15
104701265 AATTATACAT
104701275 AATAAT-AAATAATA
1 AATAATAAAATAATA
104701289 AATAATAAAATAATA
1 AATAATAAAATAATA
* *
104701304 TATAATAAAATAAAA
1 AATAATAAAATAATA
*
104701319 AATAATATAATGAAT-
1 AATAATAAAAT-AATA
*
104701334 AATATATATAATAA-A
1 AATA-ATAAAATAATA
104701349 AATAATA
1 AATAATA
104701356 TATATAATAT
Statistics
Matches: 58, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
14 9 0.16
15 40 0.69
16 9 0.16
ACGTcount: A:0.69, C:0.00, G:0.01, T:0.30
Consensus pattern (15 bp):
AATAATAAAATAATA
Found at i:104701361 original size:34 final size:32
Alignment explanation
Indices: 104701262--104701364 Score: 102
Period size: 32 Copynumber: 3.1 Consensus size: 32
104701252 TATAAATTTT
*
104701262 TAAAATTATACATAATAATAAATAATA-A-ATAA
1 TAAAA-TATATATAATAA-AAATAATATATATAA
* *
104701294 TAAAATAATATATAATAAAATAAAAAATAATATAA
1 TAAAAT-ATATATAATAAAA-ATAATAT-ATATAA
104701329 TGAATAATATATATAATAAAAATAATATATATAA
1 T-AA-AATATATATAATAAAAATAATATATATAA
104701363 TA
1 TA
104701365 TTTTTTTTAC
Statistics
Matches: 59, Mismatches: 5, Indels: 13
0.77 0.06 0.17
Matches are distributed among these distances:
31 3 0.05
32 19 0.32
33 1 0.02
34 8 0.14
35 10 0.17
36 15 0.25
37 3 0.05
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.32
Consensus pattern (32 bp):
TAAAATATATATAATAAAAATAATATATATAA
Found at i:104701432 original size:29 final size:29
Alignment explanation
Indices: 104701399--104701455 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
104701389 TTCATAGTAA
*
104701399 AAATAAATAATATATAAAATATTTAAAAT
1 AAATAAATAATATATAAAAAATTTAAAAT
*
104701428 AAATAAATTATATATAAAAAATTTAAAA
1 AAATAAATAATATATAAAAAATTTAAAA
104701456 AGGATTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (29 bp):
AAATAAATAATATATAAAAAATTTAAAAT
Found at i:104702523 original size:8 final size:8
Alignment explanation
Indices: 104702510--104702540 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
104702500 TTTGGGCAAC
104702510 ATTTGGGT
1 ATTTGGGT
104702518 ATTTGGGT
1 ATTTGGGT
*
104702526 ATTTAGGT
1 ATTTGGGT
104702534 ATTTGGG
1 ATTTGGG
104702541 CTACGGTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.16, C:0.00, G:0.35, T:0.48
Consensus pattern (8 bp):
ATTTGGGT
Found at i:104702882 original size:45 final size:44
Alignment explanation
Indices: 104702834--104703225 Score: 210
Period size: 45 Copynumber: 8.8 Consensus size: 44
104702824 TAATATCCTT
* * *
104702834 GATCTGCTCCCCGTCAAATATAGAGATGCCAAATCTACTATCTTT
1 GATCTGCTCCCCGTCAAACACAGAGATGCCAAATCT-CTATCTTC
*** * *
104702879 GATCTGCTTCGATGT-AAACACATGA-ATGTCAGATCTGCTATCTTC
1 GATCTGC-TCCCCGTCAAACACA-GAGATGCCAAATCT-CTATCTTC
* * *
104702924 GATCTGCTCCCGGTCTAACACAGAGATGCCAAATCTGTCATCTTC
1 GATCTGCTCCCCGTCAAACACAGAGATGCCAAATCTCT-ATCTTC
*** *
104702969 GATCTGCTTCGATGT-AAACACATGA-ATGTCAAATCTGCTATCTTC
1 GATCTGC-TCCCCGTCAAACACA-GAGATGCCAAATCT-CTATCTTC
* * * * *
104703014 GATCTCCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTC
1 GATCTGCTCCCCGTCAAACACAGAGATGCCAAATCTCT-ATCTTC
* * * **
104703059 GATCTGCT--TCGAT-ATACA-TGA-ATTTCAAATCTGCTATCTTC
1 GATCTGCTCCCCG-TCAAACACAGAGATGCCAAATCT-CTATCTTC
* * * * ** *
104703100 GATCTACTCCCTGTCTAATACAGAGAAACCAAATCTGTCATCTTC
1 GATCTGCTCCCCGTCAAACACAGAGATGCCAAATCTCT-ATCTTC
*** * * * *
104703145 GATCTGCTTCGATGT-AAACACACAAATGTCAGATCTGCTATCTTC
1 GATCTGC-TCCCCGTCAAACACAGAGATGCCAAATCT-CTATCTTC
* * *
104703190 GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCT
1 GATCTGCTCCCCGTCAAACACAGAGATGCCAAATCT
104703226 ACTAACAGTG
Statistics
Matches: 251, Mismatches: 74, Indels: 44
0.68 0.20 0.12
Matches are distributed among these distances:
41 21 0.08
42 4 0.02
43 7 0.03
44 22 0.09
45 178 0.71
46 19 0.08
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (44 bp):
GATCTGCTCCCCGTCAAACACAGAGATGCCAAATCTCTATCTTC
Found at i:104703138 original size:176 final size:178
Alignment explanation
Indices: 104702834--104703229 Score: 591
Period size: 176 Copynumber: 2.2 Consensus size: 178
104702824 TAATATCCTT
* * * *
104702834 GATCTGCTCCCCGTCAAATATAGAGATGCCAAATCTACTATCTTTGATCTGCTTCGATGTAAACA
1 GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTACTATCTTCGATCTGCTTCGA-GT-AACA
* * **
104702899 CATGAATGTCAGATCTGCTATCTTCGATCTGCTCCCGGTCTAACACAGAGATGCCAAATCTGTCA
64 CATGAATGTCAAATCTGCTATCTTCGATCTACTCCCGGTCTAACACAGAGAAACCAAATCTGTCA
**
104702964 TCTTCGATCTGCTTCGATGTAAACACATGAATGTCAAATCTGCTATCTTC
129 TCTTCGATCTGCTTCGATGTAAACACACAAATGTCAAATCTGCTATCTTC
* * *
104703014 GATCTCCTCCCCGTCTAATACAGAGACGCCAAATCT-GTCATCTTCGATCTGCTTCGA-T-ATAC
1 GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTACT-ATCTTCGATCTGCTTCGAGTAACAC
* * *
104703076 ATGAATTTCAAATCTGCTATCTTCGATCTACTCCCTGTCTAATACAGAGAAACCAAATCTGTCAT
65 ATGAATGTCAAATCTGCTATCTTCGATCTACTCCCGGTCTAACACAGAGAAACCAAATCTGTCAT
*
104703141 CTTCGATCTGCTTCGATGTAAACACACAAATGTCAGATCTGCTATCTTC
130 CTTCGATCTGCTTCGATGTAAACACACAAATGTCAAATCTGCTATCTTC
104703190 GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTACTA
1 GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTACTA
104703230 ACAGTGATCT
Statistics
Matches: 195, Mismatches: 19, Indels: 8
0.88 0.09 0.04
Matches are distributed among these distances:
176 143 0.73
177 1 0.01
178 1 0.01
179 1 0.01
180 49 0.25
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (178 bp):
GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTACTATCTTCGATCTGCTTCGAGTAACACA
TGAATGTCAAATCTGCTATCTTCGATCTACTCCCGGTCTAACACAGAGAAACCAAATCTGTCATC
TTCGATCTGCTTCGATGTAAACACACAAATGTCAAATCTGCTATCTTC
Found at i:104703239 original size:90 final size:90
Alignment explanation
Indices: 104702834--104703225 Score: 569
Period size: 90 Copynumber: 4.4 Consensus size: 90
104702824 TAATATCCTT
* * * * *
104702834 GATCTGCTCCCCGTCAAATATAGAGATGCCAAATCT-ACTATCTTTGATCTGCTTCGATGTAAAC
1 GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTC-ATCTTCGATCTGCTTCGATGTAAAC
*
104702898 ACATGAATGTCAGATCTGCTATCTTC
65 ACATGAATGTCAAATCTGCTATCTTC
* * *
104702924 GATCTGCTCCCGGTCTAACACAGAGATGCCAAATCTGTCATCTTCGATCTGCTTCGATGTAAACA
1 GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATGTAAACA
104702989 CATGAATGTCAAATCTGCTATCTTC
66 CATGAATGTCAAATCTGCTATCTTC
* *
104703014 GATCTCCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGA--T--ATA
1 GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATGTAAACA
*
104703075 CATGAATTTCAAATCTGCTATCTTC
66 CATGAATGTCAAATCTGCTATCTTC
* * **
104703100 GATCTACTCCCTGTCTAATACAGAGAAACCAAATCTGTCATCTTCGATCTGCTTCGATGTAAACA
1 GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATGTAAACA
** *
104703165 CACAAATGTCAGATCTGCTATCTTC
66 CATGAATGTCAAATCTGCTATCTTC
104703190 GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCT
1 GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCT
104703226 ACTAACAGTG
Statistics
Matches: 271, Mismatches: 26, Indels: 10
0.88 0.08 0.03
Matches are distributed among these distances:
86 79 0.29
88 2 0.01
90 189 0.70
91 1 0.00
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (90 bp):
GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATGTAAACA
CATGAATGTCAAATCTGCTATCTTC
Found at i:104710184 original size:16 final size:16
Alignment explanation
Indices: 104710163--104710193 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
104710153 ACCCCTTCTG
104710163 GCGTTCTCAATCATTA
1 GCGTTCTCAATCATTA
104710179 GCGTTCTCAATCATT
1 GCGTTCTCAATCATT
104710194 TCCCCTACCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.23, C:0.26, G:0.13, T:0.39
Consensus pattern (16 bp):
GCGTTCTCAATCATTA
Found at i:104714932 original size:3 final size:3
Alignment explanation
Indices: 104714924--104715023 Score: 84
Period size: 3 Copynumber: 32.7 Consensus size: 3
104714914 AAAATTATAC
104714924 ATA ATA ATAA ATA ATAA ATA ATA TATA ATA A-A ATA ATA TATA ATA A-A
1 ATA ATA AT-A ATA AT-A ATA ATA -ATA ATA ATA ATA ATA -ATA ATA ATA
* *
104714971 ATA AAA ATA AT- ATA ATGA ATA AT- ATA TATA ATA AAA ATA AT- ATA
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA ATA ATA ATA ATA ATA
104715015 TATA ATA AT
1 -ATA ATA AT
104715024 TTTTTTTACA
Statistics
Matches: 81, Mismatches: 4, Indels: 24
0.74 0.04 0.22
Matches are distributed among these distances:
2 10 0.12
3 50 0.62
4 21 0.26
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:104714953 original size:21 final size:21
Alignment explanation
Indices: 104714927--104715023 Score: 87
Period size: 22 Copynumber: 4.6 Consensus size: 21
104714917 ATTATACATA
104714927 ATAATAAATAATAAATAATAT
1 ATAATAAATAATAAATAATAT
* *
104714948 ATAATAAAATAATATATAATAAA
1 ATAAT-AAATAATAAATAAT-AT
104714971 ATAA-AAATAATATAATGAATA-
1 ATAATAAATAATA-AAT-AATAT
104714992 ATATATATAATAA-AAATAATAT
1 ATA-ATA-AATAATAAATAATAT
104715014 AT-AT-AATAAT
1 ATAATAAATAAT
104715024 TTTTTTTACA
Statistics
Matches: 64, Mismatches: 3, Indels: 20
0.74 0.03 0.23
Matches are distributed among these distances:
18 5 0.08
20 2 0.03
21 20 0.31
22 22 0.34
23 10 0.16
24 5 0.08
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (21 bp):
ATAATAAATAATAAATAATAT
Found at i:104715113 original size:29 final size:29
Alignment explanation
Indices: 104715057--104715112 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
104715047 TTCATAGTAA
*
104715057 AAATAAATAATATTTAAAATATTTAAAAT
1 AAATAAATAATATATAAAATATTTAAAAT
*
104715086 AAATAAATTATATATAAAA-ATTTAAAA
1 AAATAAATAATATATAAAATATTTAAAA
104715113 AGGATTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 8 0.32
29 17 0.68
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (29 bp):
AAATAAATAATATATAAAATATTTAAAAT
Found at i:104723295 original size:21 final size:22
Alignment explanation
Indices: 104723271--104723323 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
104723261 GTAGATCAAT
104723271 AAATTTATTAATAAT-ATTAAA
1 AAATTTATTAATAATAATTAAA
*
104723292 AAATTTA--AATCATAATTAAA
1 AAATTTATTAATAATAATTAAA
104723312 ACAATTGTATTA
1 A-AATT-TATTA
104723324 TAACATACAG
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
19 5 0.19
20 7 0.27
21 11 0.42
22 2 0.08
24 1 0.04
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.40
Consensus pattern (22 bp):
AAATTTATTAATAATAATTAAA
Found at i:104723767 original size:23 final size:24
Alignment explanation
Indices: 104723741--104723801 Score: 63
Period size: 23 Copynumber: 2.6 Consensus size: 24
104723731 TATGTAAAAA
104723741 AAATTAATTAATATTTTTAAAT-T
1 AAATTAATTAATATTTTTAAATAT
* *
104723764 AAA-TATTATAATTTTTTTAAATAT
1 AAATTAAT-TAATATTTTTAAATAT
* *
104723788 AAATTTAGTAATAT
1 AAATTAATTAATAT
104723802 AATAAAAATA
Statistics
Matches: 29, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
22 3 0.10
23 16 0.55
24 9 0.31
25 1 0.03
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (24 bp):
AAATTAATTAATATTTTTAAATAT
Found at i:104723790 original size:24 final size:23
Alignment explanation
Indices: 104723749--104723801 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
104723739 AAAAATTAAT
104723749 TAATATTTTTAAATTAAATATTA-
1 TAATATTTTTAAATTAAAT-TTAG
*
104723772 TAATTTTTTTAAATATAAATTTAG
1 TAATATTTTTAAAT-TAAATTTAG
104723796 TAATAT
1 TAATAT
104723802 AATAAAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 16 0.62
24 10 0.38
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (23 bp):
TAATATTTTTAAATTAAATTTAG
Found at i:104724963 original size:18 final size:18
Alignment explanation
Indices: 104724924--104724979 Score: 60
Period size: 19 Copynumber: 3.1 Consensus size: 18
104724914 TCAACAAAAA
* *
104724924 AAAATACAAAATAATTTTT
1 AAAATTCAAAAT-ATTTAT
*
104724943 AAAATTTAAAATATTTAT
1 AAAATTCAAAATATTTAT
104724961 AAAAATTCAAAA-ATTTAT
1 -AAAATTCAAAATATTTAT
104724979 A
1 A
104724980 GTTTTAAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
17 1 0.03
18 11 0.34
19 20 0.62
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.38
Consensus pattern (18 bp):
AAAATTCAAAATATTTAT
Found at i:104731527 original size:14 final size:16
Alignment explanation
Indices: 104731510--104731546 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
104731500 TATGTTATTT
104731510 TTAATGTA-AA-TGGA
1 TTAATGTATAATTGGA
104731524 TTAATGTATAATTGGA
1 TTAATGTATAATTGGA
*
104731540 TCAATGT
1 TTAATGT
104731547 TATGATGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 8 0.40
15 2 0.10
16 10 0.50
ACGTcount: A:0.38, C:0.03, G:0.19, T:0.41
Consensus pattern (16 bp):
TTAATGTATAATTGGA
Found at i:104733419 original size:26 final size:26
Alignment explanation
Indices: 104733390--104733447 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
104733380 TTACAGTATG
104733390 ATAGAATTATTATGTGAAAGTTTCGT
1 ATAGAATTATTATGTGAAAGTTTCGT
104733416 ATAGAATTATTATGTGAAAGTTTCGT
1 ATAGAATTATTATGTGAAAGTTTCGT
*
104733442 AAAGAA
1 ATAGAA
104733448 ATTTTACTGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.40, C:0.03, G:0.19, T:0.38
Consensus pattern (26 bp):
ATAGAATTATTATGTGAAAGTTTCGT
Found at i:104734627 original size:23 final size:23
Alignment explanation
Indices: 104734601--104734690 Score: 87
Period size: 23 Copynumber: 4.0 Consensus size: 23
104734591 AGCTTACTGT
*
104734601 TTCAACTCATTGGAGCTTATCGA
1 TTCAACTCATTAGAGCTTATCGA
* *
104734624 TTCATCTCGTTAGAGCTTATCGA
1 TTCAACTCATTAGAGCTTATCGA
*
104734647 TTCAGCTCGA-TAGAGCTTA-CTG-
1 TTCAACTC-ATTAGAGCTTATC-GA
* *
104734669 TTCAGCTCAATAGAGCTTATCG
1 TTCAACTCATTAGAGCTTATCG
104734691 TTTTCAGCTC
Statistics
Matches: 58, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
21 1 0.02
22 19 0.33
23 38 0.66
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.34
Consensus pattern (23 bp):
TTCAACTCATTAGAGCTTATCGA
Found at i:104734701 original size:24 final size:24
Alignment explanation
Indices: 104734613--104734707 Score: 108
Period size: 23 Copynumber: 4.1 Consensus size: 24
104734603 CAACTCATTG
* **
104734613 GAGCTTATCG-ATTCATCTCGTTA
1 GAGCTTATCGTATTCAGCTCAATA
*
104734636 GAGCTTATCG-ATTCAGCTCGATA
1 GAGCTTATCGTATTCAGCTCAATA
*
104734659 GAGCTTA-C-TGTTCAGCTCAATA
1 GAGCTTATCGTATTCAGCTCAATA
*
104734681 GAGCTTATCGTTTTCAGCTCAATA
1 GAGCTTATCGTATTCAGCTCAATA
104734705 GAG
1 GAG
104734708 TTTACTATTT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
22 19 0.30
23 29 0.45
24 16 0.25
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (24 bp):
GAGCTTATCGTATTCAGCTCAATA
Found at i:104734707 original size:69 final size:69
Alignment explanation
Indices: 104734567--104734713 Score: 165
Period size: 69 Copynumber: 2.1 Consensus size: 69
104734557 CAGCTCGTAT
* * *
104734567 GAGCTTACTGATTAAGCTCGTAAGAGCTTACTGTTTCAACTCATTGGAGCTTATCGATTCATCTC
1 GAGCTTACTGATTAAGCTCGTAAGAGCTTACTGTTTCAACTCAATAGAGCTTATCGATTCAGCTC
**
104734632 GTTA
66 AATA
* * *
104734636 GAGCTTA-TCGATTCAGCTCG-ATAGAGCTTACTG-TTCAGCTCAATAGAGCTTATCGTTTTCAG
1 GAGCTTACT-GATTAAGCTCGTA-AGAGCTTACTGTTTCAACTCAATAGAGCTTATCG-ATTCAG
104734698 CTCAATA
63 CTCAATA
*
104734705 GAGTTTACT
1 GAGCTTACT
104734714 ATTTATCATC
Statistics
Matches: 65, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
68 21 0.32
69 43 0.66
70 1 0.02
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.35
Consensus pattern (69 bp):
GAGCTTACTGATTAAGCTCGTAAGAGCTTACTGTTTCAACTCAATAGAGCTTATCGATTCAGCTC
AATA
Found at i:104738000 original size:20 final size:20
Alignment explanation
Indices: 104737933--104738031 Score: 90
Period size: 20 Copynumber: 5.0 Consensus size: 20
104737923 TATCAGTATA
*
104737933 TGGCACAAAGCCATGAGTAG
1 TGGCACAAAGCCATGAATAG
* * * * * *
104737953 CGACTCGAAGCCATCAATAC
1 TGGCACAAAGCCATGAATAG
* *
104737973 CGGTACAAAGCCATGAATAG
1 TGGCACAAAGCCATGAATAG
*
104737993 TGGCACAACGCCATGAATAG
1 TGGCACAAAGCCATGAATAG
* *
104738013 TAGCACAAAGCCATAAATA
1 TGGCACAAAGCCATGAATA
104738032 TCGTAGCAAT
Statistics
Matches: 60, Mismatches: 19, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 60 1.00
ACGTcount: A:0.39, C:0.24, G:0.21, T:0.15
Consensus pattern (20 bp):
TGGCACAAAGCCATGAATAG
Found at i:104741513 original size:25 final size:26
Alignment explanation
Indices: 104741470--104741519 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
104741460 ACACTAATAT
* *
104741470 CACAGCAAAGCTTCTAGTAACAGTAG
1 CACAGCAAAGCTGCCAGTAACAGTAG
*
104741496 CACAGC-AAGCTGCCAGTATCAGTA
1 CACAGCAAAGCTGCCAGTAACAGTA
104741520 TATGGCACAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 15 0.71
26 6 0.29
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.18
Consensus pattern (26 bp):
CACAGCAAAGCTGCCAGTAACAGTAG
Found at i:104741562 original size:20 final size:20
Alignment explanation
Indices: 104741523--104741640 Score: 157
Period size: 20 Copynumber: 5.9 Consensus size: 20
104741513 ATCAGTATAT
104741523 GGCACAAAGCCAT-AACTAGC
1 GGCACAAAGCCATCAA-TAGC
* * *
104741543 AGCTCGAAGCCATCAATAGC
1 GGCACAAAGCCATCAATAGC
*
104741563 GGCACAAAGCCATCAATAGT
1 GGCACAAAGCCATCAATAGC
*
104741583 GGCACAAAGCCATCAATAGT
1 GGCACAAAGCCATCAATAGC
*
104741603 GGCACAAAGCCATCAATAGT
1 GGCACAAAGCCATCAATAGC
*
104741623 GGCACAAAGCCATAAATA
1 GGCACAAAGCCATCAATA
104741641 TCGTAGCAAT
Statistics
Matches: 89, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
20 87 0.98
21 2 0.02
ACGTcount: A:0.41, C:0.26, G:0.19, T:0.14
Consensus pattern (20 bp):
GGCACAAAGCCATCAATAGC
Found at i:104741731 original size:36 final size:36
Alignment explanation
Indices: 104741680--104741750 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 36
104741670 AAGCCATCAG
*
104741680 TAGGTCCACAGTCGTCTTGTGCGACCCGTGCAACCT
1 TAGGTCCACAATCGTCTTGTGCGACCCGTGCAACCT
* *
104741716 TAGGTCCACAATCGTCTTGTGTGACTCGTGCAACC
1 TAGGTCCACAATCGTCTTGTGCGACCCGTGCAACC
104741751 ATAGCAGTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.18, C:0.31, G:0.24, T:0.27
Consensus pattern (36 bp):
TAGGTCCACAATCGTCTTGTGCGACCCGTGCAACCT
Found at i:104751373 original size:138 final size:138
Alignment explanation
Indices: 104751125--104751409 Score: 570
Period size: 138 Copynumber: 2.1 Consensus size: 138
104751115 GGGTGTTACA
104751125 AAATTCTTTTGACTTCTTCAATGGAGACAAGAATGATTTTCCTAAAGGTCACTTTCTTGAATCAT
1 AAATTCTTTTGACTTCTTCAATGGAGACAAGAATGATTTTCCTAAAGGTCACTTTCTTGAATCAT
104751190 GAGCTTTAGAATTAGCTTTTCTCTTCGATTTGTTGAGTTCTTAAACCTTGTGTGTTCTTTCAATT
66 GAGCTTTAGAATTAGCTTTTCTCTTCGATTTGTTGAGTTCTTAAACCTTGTGTGTTCTTTCAATT
104751255 AGAACTAC
131 AGAACTAC
104751263 AAATTCTTTTGACTTCTTCAATGGAGACAAGAATGATTTTCCTAAAGGTCACTTTCTTGAATCAT
1 AAATTCTTTTGACTTCTTCAATGGAGACAAGAATGATTTTCCTAAAGGTCACTTTCTTGAATCAT
104751328 GAGCTTTAGAATTAGCTTTTCTCTTCGATTTGTTGAGTTCTTAAACCTTGTGTGTTCTTTCAATT
66 GAGCTTTAGAATTAGCTTTTCTCTTCGATTTGTTGAGTTCTTAAACCTTGTGTGTTCTTTCAATT
104751393 AGAACTAC
131 AGAACTAC
104751401 AAATTCTTT
1 AAATTCTTT
104751410 CAGCTCAAGA
Statistics
Matches: 147, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
138 147 1.00
ACGTcount: A:0.26, C:0.16, G:0.15, T:0.42
Consensus pattern (138 bp):
AAATTCTTTTGACTTCTTCAATGGAGACAAGAATGATTTTCCTAAAGGTCACTTTCTTGAATCAT
GAGCTTTAGAATTAGCTTTTCTCTTCGATTTGTTGAGTTCTTAAACCTTGTGTGTTCTTTCAATT
AGAACTAC
Found at i:104752717 original size:30 final size:30
Alignment explanation
Indices: 104752681--104752763 Score: 112
Period size: 30 Copynumber: 2.8 Consensus size: 30
104752671 CGGCCATGAC
* **
104752681 ACACGGGCATGTGGCCTACCCGTATGTCTA
1 ACACGGGCGTGTGGATTACCCGTATGTCTA
* * *
104752711 ACACGGGCGTGTAGATTACCCATGTGTCTA
1 ACACGGGCGTGTGGATTACCCGTATGTCTA
104752741 ACACGGGCGTGTGGATTACCCGT
1 ACACGGGCGTGTGGATTACCCGT
104752764 GTGGAAGTGC
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 45 1.00
ACGTcount: A:0.20, C:0.27, G:0.29, T:0.24
Consensus pattern (30 bp):
ACACGGGCGTGTGGATTACCCGTATGTCTA
Found at i:104754721 original size:17 final size:17
Alignment explanation
Indices: 104754681--104754714 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
104754671 GAGCTAATTT
*
104754681 GTGATTTTTGCCTTTCC
1 GTGATTTTCGCCTTTCC
104754698 GTGATTTTCGCCTTTCC
1 GTGATTTTCGCCTTTCC
104754715 TCGATTTAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.06, C:0.26, G:0.18, T:0.50
Consensus pattern (17 bp):
GTGATTTTCGCCTTTCC
Found at i:104759453 original size:25 final size:25
Alignment explanation
Indices: 104759425--104759482 Score: 100
Period size: 25 Copynumber: 2.4 Consensus size: 25
104759415 AATTTGATAT
104759425 TTCAGCAAAGAAGGCATTGTTGAGA
1 TTCAGCAAAGAAGGCATTGTTGAGA
*
104759450 TTCAGCAGAGAAGGCATTGTTGAGA
1 TTCAGCAAAGAAGGCATTGTTGAGA
104759475 TTC-GCAAA
1 TTCAGCAAA
104759483 CTCAATAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
24 4 0.13
25 27 0.87
ACGTcount: A:0.34, C:0.14, G:0.28, T:0.24
Consensus pattern (25 bp):
TTCAGCAAAGAAGGCATTGTTGAGA
Found at i:104761619 original size:52 final size:52
Alignment explanation
Indices: 104761541--104761646 Score: 194
Period size: 52 Copynumber: 2.0 Consensus size: 52
104761531 GACTCAGGTG
**
104761541 TAGTTTGATGCAAGTGTATAAAAAATAATTGATTTAAATCTGTATATAATGT
1 TAGTTTGATGCAAGTGTATAAAAAATAATTGATTTAAAGATGTATATAATGT
104761593 TAGTTTGATGCAAGTGTATAAAAAATAATTGATTTAAAGATGTATATAATGT
1 TAGTTTGATGCAAGTGTATAAAAAATAATTGATTTAAAGATGTATATAATGT
104761645 TA
1 TA
104761647 ACTTCACTCT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.42, C:0.03, G:0.16, T:0.40
Consensus pattern (52 bp):
TAGTTTGATGCAAGTGTATAAAAAATAATTGATTTAAAGATGTATATAATGT
Found at i:104761636 original size:26 final size:25
Alignment explanation
Indices: 104761552--104761638 Score: 68
Period size: 26 Copynumber: 3.4 Consensus size: 25
104761542 AGTTTGATGC
104761552 AAGTGTATAAAAAATAATTGATTTA
1 AAGTGTATAAAAAATAATTGATTTA
* *** * **
104761577 AATCTGTATATAATGTTAGTTTGA-TGC
1 AA-GTGTATA-AAAAATA-ATTGATTTA
104761604 AAGTGTATAAAAAATAATTGATTTA
1 AAGTGTATAAAAAATAATTGATTTA
104761629 AAGATGTATA
1 AAG-TGTATA
104761639 TAATGTTAAC
Statistics
Matches: 43, Mismatches: 14, Indels: 9
0.65 0.21 0.14
Matches are distributed among these distances:
24 4 0.09
25 10 0.23
26 18 0.42
27 7 0.16
28 4 0.09
ACGTcount: A:0.45, C:0.02, G:0.15, T:0.38
Consensus pattern (25 bp):
AAGTGTATAAAAAATAATTGATTTA
Found at i:104764690 original size:25 final size:25
Alignment explanation
Indices: 104764661--104764708 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
104764651 TTATAATATG
* * *
104764661 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
104764686 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
104764709 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:104764777 original size:20 final size:20
Alignment explanation
Indices: 104764752--104764810 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
104764742 TAAATATGGT
104764752 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
* *
104764772 ATGTATGATACGCACATGAT
1 ATGTATGATATGCACATGAA
104764792 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
104764811 GGTAATCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:104764930 original size:47 final size:48
Alignment explanation
Indices: 104764861--104764979 Score: 172
Period size: 47 Copynumber: 2.5 Consensus size: 48
104764851 GAGGAAGTGA
104764861 AAAAGGGCTTATGCCCCAGTTATCGAAAGGGCTTAT-GCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATCGAAAGGGCTT-TGGCCCCAGTTATT
*
104764908 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTGGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCGAAAGGGCTTTGGCCCCAGTTATT
*
104764956 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
104764980 ATGATAAAGC
Statistics
Matches: 66, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
46 1 0.02
47 43 0.65
48 11 0.17
49 11 0.17
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATCGAAAGGGCTTTGGCCCCAGTTATT
Found at i:104764955 original size:24 final size:24
Alignment explanation
Indices: 104764861--104764979 Score: 154
Period size: 24 Copynumber: 5.0 Consensus size: 24
104764851 GAGGAAGTGA
*
104764861 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
*
104764885 GAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
104764908 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
104764932 GAAAGGGCTT-TGGCCCCAGTTATT
1 AAAAGGGCTTAT-GCCCCAGTTATT
*
104764956 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
104764980 ATGATAAAGC
Statistics
Matches: 84, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
23 22 0.26
24 51 0.61
25 11 0.13
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:104765224 original size:31 final size:31
Alignment explanation
Indices: 104765171--104765271 Score: 123
Period size: 38 Copynumber: 3.1 Consensus size: 31
104765161 CGTTTACAGT
*
104765171 AAAGGCTTCGG-CCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGA
104765201 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
1 AAAGGCTTCGGCCCAGTATTATG-AA-AT-----ATGA
104765239 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGA
104765270 AA
1 AA
104765272 TATGAAAAGG
Statistics
Matches: 62, Mismatches: 1, Indels: 15
0.79 0.01 0.19
Matches are distributed among these distances:
30 11 0.18
31 16 0.26
32 2 0.03
33 2 0.03
36 2 0.03
37 2 0.03
38 27 0.44
ACGTcount: A:0.40, C:0.15, G:0.22, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTATTATGAAATATGA
Found at i:104765239 original size:38 final size:38
Alignment explanation
Indices: 104765187--104765294 Score: 189
Period size: 38 Copynumber: 2.8 Consensus size: 38
104765177 TTCGGCCAGT
104765187 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
1 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
*
104765225 AATATGAAACATGAAAAGGCTTCGGCCCAGTATTATGA
1 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
*
104765263 AATATGAAATATGAAAAGGGCTACGGCCCAGT
1 AATATGAAATATGAAAA-GGCTTCGGCCCAGT
104765295 GCATGATTGA
Statistics
Matches: 66, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
38 53 0.80
39 13 0.20
ACGTcount: A:0.40, C:0.15, G:0.22, T:0.23
Consensus pattern (38 bp):
AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
Found at i:104771910 original size:25 final size:25
Alignment explanation
Indices: 104771881--104771928 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
104771871 TTATAATATG
* * *
104771881 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
104771906 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
104771929 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:104771997 original size:20 final size:20
Alignment explanation
Indices: 104771972--104772030 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
104771962 TAAATATGGT
104771972 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
* *
104771992 ATGTATGATACGCACATGAT
1 ATGTATGATATGCACATGAA
104772012 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
104772031 GGTAATCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:104772150 original size:47 final size:48
Alignment explanation
Indices: 104772081--104772199 Score: 172
Period size: 47 Copynumber: 2.5 Consensus size: 48
104772071 GAGGAAGTGA
104772081 AAAAGGGCTTATGCCCCAGTTATCGAAAGGGCTTAT-GCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATCGAAAGGGCTT-TGGCCCCAGTTATT
*
104772128 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTGGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCGAAAGGGCTTTGGCCCCAGTTATT
*
104772176 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
104772200 ATGATAAAGC
Statistics
Matches: 66, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
46 1 0.02
47 43 0.65
48 11 0.17
49 11 0.17
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATCGAAAGGGCTTTGGCCCCAGTTATT
Found at i:104772175 original size:24 final size:24
Alignment explanation
Indices: 104772081--104772199 Score: 154
Period size: 24 Copynumber: 5.0 Consensus size: 24
104772071 GAGGAAGTGA
*
104772081 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
*
104772105 GAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
104772128 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
104772152 GAAAGGGCTT-TGGCCCCAGTTATT
1 AAAAGGGCTTAT-GCCCCAGTTATT
*
104772176 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
104772200 ATGATAAAGC
Statistics
Matches: 84, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
23 22 0.26
24 51 0.61
25 11 0.13
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:104772426 original size:31 final size:31
Alignment explanation
Indices: 104772391--104772492 Score: 123
Period size: 31 Copynumber: 3.1 Consensus size: 31
104772381 CATTTACAGT
104772391 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
104772422 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
1 AAAGGCTTCGGCCCAG-----T--AATATGAAATATGA
*
104772460 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
104772491 AA
1 AA
104772493 TATGAAAAGG
Statistics
Matches: 61, Mismatches: 3, Indels: 14
0.78 0.04 0.18
Matches are distributed among these distances:
31 30 0.49
33 1 0.02
36 1 0.02
38 29 0.48
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:104772460 original size:38 final size:38
Alignment explanation
Indices: 104772408--104772515 Score: 189
Period size: 38 Copynumber: 2.8 Consensus size: 38
104772398 TCGGCCCAGT
104772408 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
1 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
*
104772446 AATATGAAACATGAAAAGGCTTCGGCCCAGTATTATGA
1 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
*
104772484 AATATGAAATATGAAAAGGGCTACGGCCCAGT
1 AATATGAAATATGAAAA-GGCTTCGGCCCAGT
104772516 GCATGATTGA
Statistics
Matches: 66, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
38 53 0.80
39 13 0.20
ACGTcount: A:0.40, C:0.15, G:0.22, T:0.23
Consensus pattern (38 bp):
AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
Found at i:104778947 original size:31 final size:29
Alignment explanation
Indices: 104778878--104778951 Score: 103
Period size: 29 Copynumber: 2.5 Consensus size: 29
104778868 ACAAAATAAT
**
104778878 AACATAAGTGACTAAAACGTAACATTTCA
1 AACATAAGTGACTAAAACGTAACATGGCA
104778907 AACATAAGTGACTAAAACGTAACATGAGGCA
1 AACATAAGTGACTAAAACGTAACAT--GGCA
*
104778938 AACAAAAGTGACTA
1 AACATAAGTGACTA
104778952 TTTTTGTAGT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
29 25 0.62
31 15 0.38
ACGTcount: A:0.50, C:0.16, G:0.15, T:0.19
Consensus pattern (29 bp):
AACATAAGTGACTAAAACGTAACATGGCA
Found at i:104779342 original size:24 final size:23
Alignment explanation
Indices: 104779275--104779342 Score: 59
Period size: 24 Copynumber: 2.9 Consensus size: 23
104779265 TTTTAATAAT
* *
104779275 AATTATA-TTAAGAATGTTATTA
1 AATTATATTTAATAATATTATTA
* *
104779297 AATTATATATT-ATTATCTTTATTA
1 AATTATAT-TTAATAAT-ATTATTA
104779321 AATTATATTTAATAATAATTAT
1 AATTATATTTAATAAT-ATTAT
104779343 ATTAAAGTAT
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
22 7 0.19
23 5 0.14
24 24 0.67
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.51
Consensus pattern (23 bp):
AATTATATTTAATAATATTATTA
Found at i:104779405 original size:59 final size:62
Alignment explanation
Indices: 104779230--104779398 Score: 204
Period size: 63 Copynumber: 2.7 Consensus size: 62
104779220 ATACTATTTT
* ** *
104779230 TTAATATTATATATTATGATTTTTATT-CATTCATATTTTAATAATAATTATATT-AAGAATGTT
1 TTAA-ATTATATATTATTATCATTATTAAATT-ATA-TTTAATAATAATTATATTAAAGAATG-T
104779293 A
62 A
* *
104779294 TTAAATTATATATTATTATCTTTATTAAATTATATTTAATAATAATTATATTAAAGTATG-A
1 TTAAATTATATATTATTATCATTATTAAATTATATTTAATAATAATTATATTAAAGAATGTA
*
104779355 TTAAATTATTTATTATT-T-ATTATTAAATTATATTTAATAATAAT
1 TTAAATTATATATTATTATCATTATTAAATTATATTTAATAATAAT
104779399 CCTATTATAA
Statistics
Matches: 97, Mismatches: 6, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
59 25 0.26
60 1 0.01
61 17 0.18
62 18 0.19
63 29 0.30
64 7 0.07
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (62 bp):
TTAAATTATATATTATTATCATTATTAAATTATATTTAATAATAATTATATTAAAGAATGTA
Found at i:104779597 original size:16 final size:16
Alignment explanation
Indices: 104779576--104779630 Score: 83
Period size: 16 Copynumber: 3.4 Consensus size: 16
104779566 TGAATTACTG
104779576 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
**
104779592 ATTACAGCTCTATTTA
1 ATTACAGCTCTATTCC
*
104779608 ATTACAGCCCTATTCC
1 ATTACAGCTCTATTCC
104779624 ATTACAG
1 ATTACAG
104779631 TGAACCAAAC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.29, C:0.27, G:0.07, T:0.36
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:104785577 original size:50 final size:50
Alignment explanation
Indices: 104785519--104785694 Score: 262
Period size: 50 Copynumber: 3.5 Consensus size: 50
104785509 CATGGCAACC
* * *
104785519 AGTGATAAGTGATAGCTTTGGCTGCACTTATCTGATCAAGGATAAGTGAA
1 AGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGAA
* *
104785569 AGTGATAAGTAATAGCTTCAGCTACACTTATCTGATCAAGGACAAGTGAA
1 AGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGAA
* *
104785619 AGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGGCAAATGACA
1 AGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGA-A
* *
104785670 AGTGAAAAGTGGTAGCTTCGGCTAC
1 AGTGATAAGTGATAGCTTCGGCTAC
104785695 CTGATTACTG
Statistics
Matches: 114, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
50 90 0.79
51 24 0.21
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (50 bp):
AGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGAA
Found at i:104785710 original size:31 final size:31
Alignment explanation
Indices: 104785670--104785818 Score: 217
Period size: 31 Copynumber: 4.8 Consensus size: 31
104785660 GCAAATGACA
*
104785670 AGTGAAAAGTGGTAGCTTCGGCTACCTGATT
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
104785701 ACTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * ** *
104785732 AATGAAAATTAATAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
104785763 AGTGAAAAATGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
104785794 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
104785819 AAATGACAAG
Statistics
Matches: 104, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 104 1.00
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.28
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:104791500 original size:42 final size:41
Alignment explanation
Indices: 104791383--104791523 Score: 113
Period size: 43 Copynumber: 3.3 Consensus size: 41
104791373 GTTTGAGACA
* * * *
104791383 TCGTGTAAGATCGTGTCTGGGACACAGGCCTCGATTGAGATT
1 TCGTGTAAGACCATGTCTGGGACACAGGCATCGATT-TGATT
* * *
104791425 TACGTATAAGACCATGTCTGGGATATC-GACATCGTATTTGATT
1 T-CGTGTAAGACCATGTCTGGGACA-CAGGCATCG-ATTTGATT
* * *
104791468 TCGTGTAAGACCCTGTCTGAGACAGAGGCATCGATATTGAGTT
1 TCGTGTAAGACCATGTCTGGGACACAGGCATCGAT-TTGA-TT
* *
104791511 ACATGTAAGACCA
1 TCGTGTAAGACCA
104791524 CGTCCAGGAC
Statistics
Matches: 77, Mismatches: 16, Indels: 11
0.74 0.15 0.11
Matches are distributed among these distances:
41 2 0.03
42 30 0.39
43 41 0.53
44 4 0.05
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (41 bp):
TCGTGTAAGACCATGTCTGGGACACAGGCATCGATTTGATT
Found at i:104799589 original size:27 final size:27
Alignment explanation
Indices: 104799551--104799608 Score: 116
Period size: 27 Copynumber: 2.1 Consensus size: 27
104799541 TGTCAGTAAT
104799551 GGTGTAGAGTTGAGTAAGAAAAGAGGG
1 GGTGTAGAGTTGAGTAAGAAAAGAGGG
104799578 GGTGTAGAGTTGAGTAAGAAAAGAGGG
1 GGTGTAGAGTTGAGTAAGAAAAGAGGG
104799605 GGTG
1 GGTG
104799609 ATACTGTAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.34, C:0.00, G:0.47, T:0.19
Consensus pattern (27 bp):
GGTGTAGAGTTGAGTAAGAAAAGAGGG
Found at i:104815480 original size:19 final size:19
Alignment explanation
Indices: 104815434--104815481 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
104815424 GTATATATTT
104815434 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
* * *
104815452 CAAATCTTATTTAGTTAGA
1 TAAATTTTATTTAGGTAGA
104815471 TAAATTTTATT
1 TAAATTTTATT
104815482 AATATTTTAA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
18 3 0.12
19 21 0.88
ACGTcount: A:0.38, C:0.04, G:0.10, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:104822858 original size:17 final size:16
Alignment explanation
Indices: 104822811--104822874 Score: 56
Period size: 17 Copynumber: 3.8 Consensus size: 16
104822801 AACTGCGGAT
*
104822811 TGCGAGCTCACCAAAAAA
1 TGCGAGCTCACC--AAAC
* *
104822829 TGTGAGCTTACCAAGAC
1 TGCGAGCTCACCAA-AC
104822846 TGCGAGCTCACCAAAC
1 TGCGAGCTCACCAAAC
*
104822862 TTGAGAGCTCACC
1 -TGCGAGCTCACC
104822875 TGCAAGCCCT
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
16 4 0.11
17 24 0.63
18 10 0.26
ACGTcount: A:0.33, C:0.30, G:0.20, T:0.17
Consensus pattern (16 bp):
TGCGAGCTCACCAAAC
Found at i:104824235 original size:7 final size:7
Alignment explanation
Indices: 104824223--104824251 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
104824213 CATATTAACT
104824223 CCCCACC
1 CCCCACC
104824230 CCCCACC
1 CCCCACC
104824237 CCCCACC
1 CCCCACC
104824244 CCCC-CC
1 CCCCACC
104824250 CC
1 CC
104824252 AAAAAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.18
7 18 0.82
ACGTcount: A:0.10, C:0.90, G:0.00, T:0.00
Consensus pattern (7 bp):
CCCCACC
Found at i:104829124 original size:43 final size:43
Alignment explanation
Indices: 104829056--104829147 Score: 116
Period size: 43 Copynumber: 2.2 Consensus size: 43
104829046 TCCTAATTGG
* *
104829056 GAAAATAGTTCCTTATTCTAATAAACTATTAAAACATAAAA-A
1 GAAAATAGTTCCTTATTCTAATAAACAACTAAAACATAAAATA
* * *
104829098 GAAAATAGTTCCCTTATTTTAGTAAACAACTAAAAGATAAAATA
1 GAAAATAGTT-CCTTATTCTAATAAACAACTAAAACATAAAATA
104829142 -AAAATA
1 GAAAATA
104829148 TTTCTAGAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
42 10 0.23
43 32 0.74
44 1 0.02
ACGTcount: A:0.53, C:0.11, G:0.07, T:0.29
Consensus pattern (43 bp):
GAAAATAGTTCCTTATTCTAATAAACAACTAAAACATAAAATA
Found at i:104829191 original size:19 final size:18
Alignment explanation
Indices: 104829169--104829208 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
104829159 TGAATAAAAC
104829169 TTATCTATCC-AAATAAGAT
1 TTATCTA-CCTAAATAA-AT
104829188 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
104829206 TTA
1 TTA
104829209 AAATATATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:104833845 original size:43 final size:43
Alignment explanation
Indices: 104833784--104833875 Score: 152
Period size: 43 Copynumber: 2.2 Consensus size: 43
104833774 TCCTAATTGG
104833784 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA-A
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAA-ATAAAATA
*
104833827 GAAAATAGTTCCCTTATTCTAGTAAACTACTAAAAATAAAATA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAAATAAAATA
104833870 -AAAATA
1 GAAAATA
104833876 TTTCTAGAAT
Statistics
Matches: 47, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
42 12 0.26
43 35 0.74
ACGTcount: A:0.52, C:0.14, G:0.05, T:0.28
Consensus pattern (43 bp):
GAAAATAGTTCCCTTATTCTAATAAACTACTAAAAATAAAATA
Found at i:104833919 original size:19 final size:18
Alignment explanation
Indices: 104833897--104833936 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
104833887 TGAATAAAAC
104833897 TTATCTATCC-AAATAAGAT
1 TTATCTA-CCTAAATAA-AT
104833916 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
104833934 TTA
1 TTA
104833937 AAATATATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:104834615 original size:20 final size:20
Alignment explanation
Indices: 104834574--104834615 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
104834564 CCTTTTAATG
* *
104834574 TTTTTTAATTATATAAAATA
1 TTTTCTAATTATACAAAATA
*
104834594 TTTTCTAATTATACAAATTA
1 TTTTCTAATTATACAAAATA
104834614 TT
1 TT
104834616 ATAACCATTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (20 bp):
TTTTCTAATTATACAAAATA
Found at i:104836564 original size:26 final size:26
Alignment explanation
Indices: 104836534--104836617 Score: 73
Period size: 26 Copynumber: 3.2 Consensus size: 26
104836524 TTGATGCAAG
104836534 TGTATAAAAAATAATTGATTTAAATA
1 TGTATAAAAAATAATTGATTTAAATA
*** * ** *
104836560 TGTATATAATGTTAGTTTGA-TGCAA-G
1 TGTATA-AAAAATA-ATTGATTTAAATA
104836586 TGTATAAAAAATAATTGATTTAAATA
1 TGTATAAAAAATAATTGATTTAAATA
104836612 TGTATA
1 TGTATA
104836618 TAATGTTAAC
Statistics
Matches: 40, Mismatches: 14, Indels: 8
0.65 0.23 0.13
Matches are distributed among these distances:
24 4 0.10
25 7 0.17
26 18 0.45
27 7 0.17
28 4 0.10
ACGTcount: A:0.45, C:0.01, G:0.13, T:0.40
Consensus pattern (26 bp):
TGTATAAAAAATAATTGATTTAAATA
Found at i:104836598 original size:52 final size:52
Alignment explanation
Indices: 104836520--104836625 Score: 212
Period size: 52 Copynumber: 2.0 Consensus size: 52
104836510 GACTCAGGTG
104836520 TAGTTTGATGCAAGTGTATAAAAAATAATTGATTTAAATATGTATATAATGT
1 TAGTTTGATGCAAGTGTATAAAAAATAATTGATTTAAATATGTATATAATGT
104836572 TAGTTTGATGCAAGTGTATAAAAAATAATTGATTTAAATATGTATATAATGT
1 TAGTTTGATGCAAGTGTATAAAAAATAATTGATTTAAATATGTATATAATGT
104836624 TA
1 TA
104836626 ACTTCACTCT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.42, C:0.02, G:0.15, T:0.41
Consensus pattern (52 bp):
TAGTTTGATGCAAGTGTATAAAAAATAATTGATTTAAATATGTATATAATGT
Found at i:104836603 original size:24 final size:24
Alignment explanation
Indices: 104836524--104836604 Score: 63
Period size: 26 Copynumber: 3.2 Consensus size: 24
104836514 CAGGTGTAGT
104836524 TTGATGCAAGTGTATAAAAAATAA
1 TTGATGCAAGTGTATAAAAAATAA
** * *** *
104836548 TTGATTTAAATATGTATATAATGTTAGT
1 TTGA-TGCAA-GTGTATA-AAAAATA-A
104836576 TTGATGCAAGTGTATAAAAAATAA
1 TTGATGCAAGTGTATAAAAAATAA
104836600 TTGAT
1 TTGAT
104836605 TTAAATATGT
Statistics
Matches: 39, Mismatches: 14, Indels: 8
0.64 0.23 0.13
Matches are distributed among these distances:
24 9 0.23
25 7 0.18
26 12 0.31
27 7 0.18
28 4 0.10
ACGTcount: A:0.43, C:0.02, G:0.16, T:0.38
Consensus pattern (24 bp):
TTGATGCAAGTGTATAAAAAATAA
Found at i:104846548 original size:23 final size:23
Alignment explanation
Indices: 104846518--104846573 Score: 94
Period size: 23 Copynumber: 2.4 Consensus size: 23
104846508 AACCCATATT
104846518 TGTTACCAAAATAGATTACGAAG
1 TGTTACCAAAATAGATTACGAAG
*
104846541 TGTTACCAAAATAGATTACGAAT
1 TGTTACCAAAATAGATTACGAAG
*
104846564 TATTACCAAA
1 TGTTACCAAA
104846574 CCAAATCACA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.45, C:0.14, G:0.12, T:0.29
Consensus pattern (23 bp):
TGTTACCAAAATAGATTACGAAG
Found at i:104846742 original size:2 final size:2
Alignment explanation
Indices: 104846735--104846767 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
104846725 CGAGCATAAA
104846735 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
104846768 GCTTTAGTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:104847301 original size:2 final size:2
Alignment explanation
Indices: 104847294--104847328 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
104847284 TCAAAACTAA
104847294 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
104847329 GAACCACAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:104851557 original size:38 final size:39
Alignment explanation
Indices: 104851474--104851612 Score: 217
Period size: 39 Copynumber: 3.6 Consensus size: 39
104851464 ATCGTGATCT
** *
104851474 GAAGCCCGAAATCTAGCTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
*
104851513 GCAGCCCGAAGGCTAACTGAAGCACA-AAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
*
104851551 GAAGCCCGGAGGCTAACTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
*
104851590 GAAGCCCGGAGGCTAACTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
104851613 TCATCAGAGC
Statistics
Matches: 93, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
38 36 0.39
39 57 0.61
ACGTcount: A:0.36, C:0.24, G:0.27, T:0.12
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
Found at i:104860413 original size:2 final size:2
Alignment explanation
Indices: 104860406--104860441 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
104860396 GAGGTAACTA
104860406 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
104860442 CATTAGTTGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:104861893 original size:26 final size:26
Alignment explanation
Indices: 104861857--104861907 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
104861847 GAAAGTGTGG
104861857 TTTCAAAACTTTGTTTATATAAACTA
1 TTTCAAAACTTTGTTTATATAAACTA
104861883 TTTCAAAACTTTGTTTATATAAACT
1 TTTCAAAACTTTGTTTATATAAACT
104861908 GGACTCGTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.37, C:0.12, G:0.04, T:0.47
Consensus pattern (26 bp):
TTTCAAAACTTTGTTTATATAAACTA
Found at i:104869792 original size:133 final size:132
Alignment explanation
Indices: 104869554--104869937 Score: 607
Period size: 133 Copynumber: 3.0 Consensus size: 132
104869544 GTTGCCGTTT
*
104869554 GTTAGAGCCGTAGCAAACATTAACTTTTTCTTTGGATAATAACATTATACAAAAAATAAAAAATA
1 GTTAGAGCCGTAGCAAACATTAGCTTTTTCTTTGGATAATAACATTATAC-AAAAATAAAAAATA
*
104869619 CTAAAAGTAAATTCTAACATCGGAGTCTCCCTTGGAAGCAACTTTATAAGCAACTAAATATACAA
65 CTAAAAGTAAATTCTAACATCGGAGTCTCGCTTGGAAGCAACTTTATAAGCAACTAAATATACAA
104869684 TTG
130 TTG
104869687 GTTAGAGCCGTAGCAAACATTAGCTTTTTCTTTGGATAATAACATTATACAAGAAATAAAAAATA
1 GTTAGAGCCGTAGCAAACATTAGCTTTTTCTTTGGATAATAACATTATACAA-AAATAAAAAATA
*
104869752 CTAAAAGTAAATTCTAACATTGGAGTCTCGCTT-G--G---------AAGCAACTAAATATACAA
65 CTAAAAGTAAATTCTAACATCGGAGTCTCGCTTGGAAGCAACTTTATAAGCAACTAAATATACAA
104869805 TTG
130 TTG
*
104869808 GTTAGAGCTGTAGCAAACATTAGC-TTTT-TTTGGATAATAACATTATACAAAAATAAAAAATAC
1 GTTAGAGCCGTAGCAAACATTAGCTTTTTCTTTGGATAATAACATTATACAAAAATAAAAAATAC
*
104869871 TAAAAGTAAATTCTAACATCGAAGTCTCGCTTGGAAGCAACTTTATAAGCAACTAAATATACAAT
66 TAAAAGTAAATTCTAACATCGGAGTCTCGCTTGGAAGCAACTTTATAAGCAACTAAATATACAAT
104869936 TG
131 TG
104869938 TCATCACACA
Statistics
Matches: 232, Mismatches: 6, Indels: 29
0.87 0.02 0.11
Matches are distributed among these distances:
118 43 0.19
119 23 0.10
120 4 0.02
121 45 0.19
130 22 0.09
132 3 0.01
133 92 0.40
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.30
Consensus pattern (132 bp):
GTTAGAGCCGTAGCAAACATTAGCTTTTTCTTTGGATAATAACATTATACAAAAATAAAAAATAC
TAAAAGTAAATTCTAACATCGGAGTCTCGCTTGGAAGCAACTTTATAAGCAACTAAATATACAAT
TG
Found at i:104869909 original size:118 final size:121
Alignment explanation
Indices: 104869666--104869912 Score: 446
Period size: 118 Copynumber: 2.1 Consensus size: 121
104869656 GCAACTTTAT
104869666 AAGCAACTAAATATACAATTGGTTAGAGCCGTAGCAAACATTAGCTTTTTCTTTGGATAATAACA
1 AAGCAACTAAATATACAATTGGTTAGAGCCGTAGCAAACATTAGCTTTTTCTTTGGATAATAACA
* *
104869731 TTATACAAGAAATAAAAAATACTAAAAGTAAATTCTAACATTGGAGTCTCGCTTGG
66 TTATACAAGAAATAAAAAATACTAAAAGTAAATTCTAACATCGAAGTCTCGCTTGG
*
104869787 AAGCAACTAAATATACAATTGGTTAGAGCTGTAGCAAACATTAGC-TTTT-TTTGGATAATAACA
1 AAGCAACTAAATATACAATTGGTTAGAGCCGTAGCAAACATTAGCTTTTTCTTTGGATAATAACA
104869850 TTATACAA-AAATAAAAAATACTAAAAGTAAATTCTAACATCGAAGTCTCGCTTGG
66 TTATACAAGAAATAAAAAATACTAAAAGTAAATTCTAACATCGAAGTCTCGCTTGG
104869905 AAGCAACT
1 AAGCAACT
104869913 TTATAAGCAA
Statistics
Matches: 123, Mismatches: 3, Indels: 3
0.95 0.02 0.02
Matches are distributed among these distances:
118 53 0.43
119 22 0.18
120 4 0.03
121 44 0.36
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (121 bp):
AAGCAACTAAATATACAATTGGTTAGAGCCGTAGCAAACATTAGCTTTTTCTTTGGATAATAACA
TTATACAAGAAATAAAAAATACTAAAAGTAAATTCTAACATCGAAGTCTCGCTTGG
Found at i:104879493 original size:48 final size:48
Alignment explanation
Indices: 104879422--104879525 Score: 163
Period size: 48 Copynumber: 2.2 Consensus size: 48
104879412 CAAGATAAAT
* * * *
104879422 ATATATATGTGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGACTAATGTGAAATATGTATGAG
104879470 ATATGTATATGTGGTAAAGCCGAATGACTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGACTAATGTGAAATATGTATGAG
*
104879518 ATGTGTAT
1 ATATGTAT
104879526 GTATTGTGGC
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 51 1.00
ACGTcount: A:0.35, C:0.06, G:0.27, T:0.33
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGACTAATGTGAAATATGTATGAG
Found at i:104879711 original size:37 final size:37
Alignment explanation
Indices: 104879661--104879732 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
104879651 GAAATATATT
*
104879661 CCGGGTAAGACCCGATGGCTACGTGTGGAGATTATGC
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGC
*
104879698 CCGGGTAAGACCCGATGACTACGTGTGGGGATTAT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTAT
104879733 TCGAGCTAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.22, C:0.21, G:0.35, T:0.22
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGC
Found at i:104884663 original size:19 final size:19
Alignment explanation
Indices: 104884639--104884680 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
104884629 GTTAAAAGGG
*
104884639 TAAAAAGGTAAATTAATAA
1 TAAAAAGGTAAACTAATAA
104884658 TAAAAAGGTAAACTAATAA
1 TAAAAAGGTAAACTAATAA
104884677 TAAA
1 TAAA
104884681 TTAAACATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.64, C:0.02, G:0.10, T:0.24
Consensus pattern (19 bp):
TAAAAAGGTAAACTAATAA
Found at i:104888725 original size:27 final size:27
Alignment explanation
Indices: 104888677--104888835 Score: 191
Period size: 27 Copynumber: 5.9 Consensus size: 27
104888667 GCGAGGCTAC
* * *
104888677 CAGATATTGTGACGGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGATA
*
104888704 CAGATATTGTGGCAGGGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
104888730 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
104888757 CAGATAATTGTGGCATAGCCACCAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
104888784 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
104888811 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
104888836 GACGCTTCCT
Statistics
Matches: 115, Mismatches: 10, Indels: 14
0.83 0.07 0.10
Matches are distributed among these distances:
26 10 0.09
27 101 0.88
28 4 0.03
ACGTcount: A:0.33, C:0.22, G:0.26, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:104888836 original size:54 final size:54
Alignment explanation
Indices: 104888677--104888838 Score: 247
Period size: 54 Copynumber: 3.0 Consensus size: 54
104888667 GCGAGGCTAC
* * * ** *
104888677 CAGATAT-TGTGACGGAGTCACCAGATACAGAT-ATTGTGGCAGGGCCACCAGAA
1 CAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCACCAGGA
104888730 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
1 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
104888784 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
1 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
104888838 C
1 C
104888839 GCTTCCTCCA
Statistics
Matches: 101, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
53 12 0.12
54 89 0.88
ACGTcount: A:0.33, C:0.22, G:0.27, T:0.19
Consensus pattern (54 bp):
CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
Found at i:104899117 original size:26 final size:26
Alignment explanation
Indices: 104899086--104899193 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
104899076 TGAAATGCCC
*
104899086 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
104899112 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
104899138 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
104899164 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
104899190 ATCA
1 ATCA
104899194 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:104904498 original size:27 final size:27
Alignment explanation
Indices: 104904450--104904608 Score: 191
Period size: 27 Copynumber: 5.9 Consensus size: 27
104904440 GCGAAACTGC
* * *
104904450 CAGATATTGTGACGGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGATA
*
104904477 CAGATATTGTGGCAAAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
104904503 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
104904530 CAGATAATTGTGGCATAGCCACCAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
104904557 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
104904584 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
104904609 GACGCTTCCT
Statistics
Matches: 115, Mismatches: 10, Indels: 14
0.83 0.07 0.10
Matches are distributed among these distances:
26 10 0.09
27 101 0.88
28 4 0.03
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:104904609 original size:54 final size:54
Alignment explanation
Indices: 104904450--104904611 Score: 256
Period size: 54 Copynumber: 3.0 Consensus size: 54
104904440 GCGAAACTGC
* * * * *
104904450 CAGATAT-TGTGACGGAGTCACCAGATACAGAT-ATTGTGGCAAAGCCACCAGAA
1 CAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCACCAGGA
104904503 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
1 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
104904557 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
1 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
104904611 C
1 C
104904612 GCTTCCTCCA
Statistics
Matches: 102, Mismatches: 5, Indels: 3
0.93 0.05 0.03
Matches are distributed among these distances:
53 12 0.12
54 90 0.88
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.19
Consensus pattern (54 bp):
CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
Found at i:104906236 original size:26 final size:26
Alignment explanation
Indices: 104906205--104906271 Score: 116
Period size: 26 Copynumber: 2.6 Consensus size: 26
104906195 TGAAATGCCC
104906205 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
104906231 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
104906257 ATCATGGAATATTTA
1 ATCATGGAACATTTA
104906272 TGTGATAGCC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.37, C:0.21, G:0.09, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:104908148 original size:79 final size:78
Alignment explanation
Indices: 104908007--104908192 Score: 209
Period size: 79 Copynumber: 2.4 Consensus size: 78
104907997 TGAATGTTCG
*
104908007 TGTGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGAATAAATCCGGGCTAAGCCCGAAG
1 TGTGATAACCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTG-ATAAATCCGGGCTAAGCCCGAAG
104908072 GCAATTGTGCGAGT
65 GCAATTGTGCGAGT
* * *
104908086 TGTGATATCCGGGCTAAG-CCCGAAGGCAATTGTG-TGAGTTG-TGATATCCGGGTTAAGTCCCG
1 TGTGATAACCGGGCTAAGTCCCGAAGGCAATTGTGCT-AG-TGAT-AAATCCGGGCTAAG-CCCG
* *
104908148 AAGGCATTTGTGCGGGT
62 AAGGCAATTGTGCGAGT
* * *
104908165 TACT-ATAACCGAGCTATGTCCCGAAGGC
1 T-GTGATAACCGGGCTAAGTCCCGAAGGC
104908193 TTTTGAATGA
Statistics
Matches: 91, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
77 2 0.02
78 29 0.32
79 50 0.55
80 10 0.11
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.25
Consensus pattern (78 bp):
TGTGATAACCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTGATAAATCCGGGCTAAGCCCGAAGG
CAATTGTGCGAGT
Found at i:104908186 original size:40 final size:40
Alignment explanation
Indices: 104908007--104908197 Score: 203
Period size: 39 Copynumber: 4.8 Consensus size: 40
104907997 TGAATGTTCG
*
104908007 TGTGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-
1 TGTGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
* *
104908046 TG-AATAAATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGT
1 TGTGAT-AA-CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
* * *
104908086 TGTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGTGAGT
1 TGTGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
* * *
104908125 TGTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGT
1 TGTGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
* * * *
104908165 TACT-ATAACCGAGCTATGTCCCGAAGGCTTTTG
1 T-GTGATAACCGGGCTAAGTCCCGAAGGCATTTG
104908198 AATGAGTAGC
Statistics
Matches: 130, Mismatches: 16, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
38 2 0.02
39 69 0.53
40 56 0.43
41 3 0.02
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.26
Consensus pattern (40 bp):
TGTGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
Found at i:104911396 original size:22 final size:22
Alignment explanation
Indices: 104911365--104911414 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
104911355 AACGAGCATA
* *
104911365 TACGAGTAAGAATCGACAAAGT
1 TACGACTAAGAATCAACAAAGT
104911387 TACGACTAAGAATCAACAAAGT
1 TACGACTAAGAATCAACAAAGT
104911409 TACGAC
1 TACGAC
104911415 ATCCGAAAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.46, C:0.18, G:0.18, T:0.18
Consensus pattern (22 bp):
TACGACTAAGAATCAACAAAGT
Found at i:104911531 original size:43 final size:43
Alignment explanation
Indices: 104911484--104911649 Score: 176
Period size: 43 Copynumber: 3.9 Consensus size: 43
104911474 GTTATCGAGA
* *
104911484 TGTGATTACATGTAAGACCATGTCTAGGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
** *
104911527 TGTGATTATGTGTAAGACCATGTCTGGGACATTGGCATCGTTAA
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCG-TAT
* * * *
104911571 TCT-ATTTCGTGTAAGACCATGTCTGGGACAATGGCATCG-AT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* * * *
104911612 ATGTGATAACATGTAAGAACATATCTGGGATA-TGGCAT
1 -TGTGATTACATGTAAGACCATGTCTGGGACATTGGCAT
104911650 TGTACGAGCT
Statistics
Matches: 103, Mismatches: 17, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
41 1 0.01
42 8 0.08
43 90 0.87
44 4 0.04
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.33
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
Found at i:104921514 original size:29 final size:30
Alignment explanation
Indices: 104921462--104921518 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
104921452 AAGACGAATT
*
104921462 CCACACAGGCTGAGCACATACCCATGTGAC
1 CCACACAGGCTGAGCACACACCCATGTGAC
* *
104921492 CCACACAGG-TTAGCACACGCCCATGTG
1 CCACACAGGCTGAGCACACACCCATGTG
104921519 GTAGCCCATG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 15 0.62
30 9 0.38
ACGTcount: A:0.28, C:0.37, G:0.21, T:0.14
Consensus pattern (30 bp):
CCACACAGGCTGAGCACACACCCATGTGAC
Found at i:104922631 original size:16 final size:17
Alignment explanation
Indices: 104922607--104922648 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
104922597 ATTGAGCCAT
104922607 TTTTA-TTTTATTGTA-
1 TTTTATTTTTATTGTAG
*
104922622 TTTTATTTTTATTTTAG
1 TTTTATTTTTATTGTAG
104922639 TTTT-TTTTTA
1 TTTTATTTTTA
104922649 ATTACTAACT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 5 0.21
16 15 0.62
17 4 0.17
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.79
Consensus pattern (17 bp):
TTTTATTTTTATTGTAG
Found at i:104922636 original size:11 final size:11
Alignment explanation
Indices: 104922605--104922648 Score: 56
Period size: 11 Copynumber: 4.1 Consensus size: 11
104922595 TAATTGAGCC
104922605 ATTTTTATTTT
1 ATTTTTATTTT
*
104922616 A-TTGTATTTT
1 ATTTTTATTTT
104922626 ATTTTTATTTT
1 ATTTTTATTTT
104922637 AGTTTTT-TTTT
1 A-TTTTTATTTT
104922648 A
1 A
104922649 ATTACTAACT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
10 9 0.31
11 15 0.52
12 5 0.17
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.77
Consensus pattern (11 bp):
ATTTTTATTTT
Found at i:104926453 original size:21 final size:21
Alignment explanation
Indices: 104926429--104926481 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
104926419 TTCTTGACTT
* *
104926429 TTATTAGTATTAATCTTTTTA
1 TTATTAGTATTAATATTGTTA
* *
104926450 TTATTAGTAGTATTATTGTTA
1 TTATTAGTATTAATATTGTTA
*
104926471 TTATTATTATT
1 TTATTAGTATT
104926482 TTCCTTTATT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.28, C:0.02, G:0.08, T:0.62
Consensus pattern (21 bp):
TTATTAGTATTAATATTGTTA
Found at i:104926460 original size:24 final size:24
Alignment explanation
Indices: 104926433--104926479 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
104926423 TGACTTTTAT
*
104926433 TAGTATTAATCTTTTTATTATTAG
1 TAGTATTAATCTTATTATTATTAG
* *
104926457 TAGTATTATTGTTATTATTATTA
1 TAGTATTAATCTTATTATTATTA
104926480 TTTTCCTTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.30, C:0.02, G:0.09, T:0.60
Consensus pattern (24 bp):
TAGTATTAATCTTATTATTATTAG
Found at i:104928132 original size:6 final size:6
Alignment explanation
Indices: 104928117--104928196 Score: 110
Period size: 6 Copynumber: 13.3 Consensus size: 6
104928107 ATTGAGTCCA
*
104928117 TTTATC TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTA-T
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
*
104928164 TTTATT TTTATG TTTATT TTGT-TT TTCTATT TT
1 TTTATT TTTATT TTTATT TT-TATT TT-TATT TT
104928197 GAACTTTATT
Statistics
Matches: 67, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
5 5 0.07
6 57 0.85
7 5 0.07
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.80
Consensus pattern (6 bp):
TTTATT
Found at i:104939688 original size:2 final size:2
Alignment explanation
Indices: 104939681--104939705 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
104939671 ATACTTACAA
104939681 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
104939706 GATAGATAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:104946540 original size:16 final size:16
Alignment explanation
Indices: 104946510--104946558 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
104946500 CGACTGTAAG
104946510 AAAGA-AAGGAG-AGA
1 AAAGAGAAGGAGAAGA
104946524 AAAGAGAAGGAGAAGA
1 AAAGAGAAGGAGAAGA
*
104946540 AGAAG-GAAGAAGAAGA
1 A-AAGAGAAGGAGAAGA
104946556 AAA
1 AAA
104946559 AAAGGTAATG
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
14 5 0.16
15 8 0.26
16 15 0.48
17 3 0.10
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (16 bp):
AAAGAGAAGGAGAAGA
Found at i:104947086 original size:113 final size:116
Alignment explanation
Indices: 104946837--104947281 Score: 645
Period size: 115 Copynumber: 3.8 Consensus size: 116
104946827 GTTGATTTGA
* *
104946837 TTATATAAATTGTTAGTGTTTAGTAGTTTA-GTGTATTAGTGTATTGTG-ATTTTTTTAGTAATA
1 TTATATAAATTGTTAGTGTTTAGTGGTTTAGGTATATTAGTGTATTGTGAATTTTTTTAGTAATA
104946900 TATTTTAAAAAGAATAATTTTATAGCTATTTTATTAGTAATTTAAGATTAGG
66 TATTTTAAAAA-AATAATTTTATAGCTATTTTATTAGTAATTTAAGATTAGG
*
104946952 TTATATAAATTGTTAGTGTTTAGTGGTTTA-GTATATTAGCGTATTGT-AATTTTTTTAGTAATA
1 TTATATAAATTGTTAGTGTTTAGTGGTTTAGGTATATTAGTGTATTGTGAATTTTTTTAGTAATA
*
104947015 TATTTTAAAAAAAT-ATTTTATAGCTATTTTATTAGTAATTTGAGATTAGG
66 TATTTTAAAAAAATAATTTTATAGCTATTTTATTAGTAATTTAAGATTAGG
* *
104947065 TTATATAAATTGTTACTGTTTAGTGGTTTAGTGTATTAGTGTATTAGTGTATTGTGATTTTTTTT
1 TTATATAAATTGTTAGTGTTTAGTGGTTTAG-G---TA---TATTAGTGTATTGTGAATTTTTTT
* *
104947130 AGTAATATATTTTTAAAAAATATTTTTATAGCTATTTTATTAGTAATTTAAGATTAGG
59 AGTAATATATTTTAAAAAAATAATTTTATAGCTATTTTATTAGTAATTTAAGATTAGG
* *
104947188 TTATAT--ATTGTTAGTGTTTAGTGGTTTAGTGTGTATTAGTGTATTGTGATTTTTTTTAGTAAT
1 TTATATAAATTGTTAGTGTTTAGTGGTTTAG-GTATATTAGTGTATTGTGAATTTTTTTAGTAAT
* *
104947251 GTA-TTTAAAAAAATAATTTTATAGTTATTTT
65 ATATTTTAAAAAAATAATTTTATAGCTATTTT
104947282 GTGTTAGTAT
Statistics
Matches: 303, Mismatches: 16, Indels: 23
0.89 0.05 0.07
Matches are distributed among these distances:
113 64 0.21
114 28 0.09
115 103 0.34
118 3 0.01
121 37 0.12
122 28 0.09
123 40 0.13
ACGTcount: A:0.31, C:0.01, G:0.16, T:0.52
Consensus pattern (116 bp):
TTATATAAATTGTTAGTGTTTAGTGGTTTAGGTATATTAGTGTATTGTGAATTTTTTTAGTAATA
TATTTTAAAAAAATAATTTTATAGCTATTTTATTAGTAATTTAAGATTAGG
Found at i:104947103 original size:8 final size:8
Alignment explanation
Indices: 104947092--104947117 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
104947082 GTTTAGTGGT
104947092 TTAGTGTA
1 TTAGTGTA
104947100 TTAGTGTA
1 TTAGTGTA
104947108 TTAGTGTA
1 TTAGTGTA
104947116 TT
1 TT
104947118 GTGATTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.23, T:0.54
Consensus pattern (8 bp):
TTAGTGTA
Found at i:104947242 original size:236 final size:235
Alignment explanation
Indices: 104946849--104947281 Score: 705
Period size: 236 Copynumber: 1.8 Consensus size: 235
104946839 ATATAAATTG
104946849 TTAGTGTTTAGTAGTTTAGTGTATTAGTGTATTGTGATTTTTTTAGTAATATATTTTAAAAAGAA
1 TTAGTGTTTAGTAGTTTAGTGTATTAGTGTATTGTGATTTTTTTAGTAATATATTTTAAAAAGAA
104946914 TAATTTTATAGCTATTTTATTAGTAATTTAAGATTAGGTTATATAAATTGTTAGTGTTTAGTGGT
66 TAATTTTATAGCTATTTTATTAGTAATTTAAGATTAGGTTATAT-AATTGTTAGTGTTTAGTGGT
104946979 TTAGTATATTAGCGTATTGTAA-TTTTTTTAGTAATATATTTTAAAAAAAT-ATTTTATAGCTAT
130 TTAGTATATTAGCGTATTGTAATTTTTTTTAGTAATATA-TTTAAAAAAATAATTTTATAGCTAT
104947042 TTTATTAGTAATTTGAGATTAGGTTATATAAATTGTTACTGT
194 TTTATTAGTAATTTGAGATTAGGTTATATAAATTGTTACTGT
*
104947084 TTAGTGGTTTAGT-GTATTAGTGTATTAGTGTATTGTGATTTTTTTTAGTAATATATTTTTAAAA
1 TTAGT-GTTTAGTAGT-TTAGTGTATTAGTGTATTGTGA-TTTTTTTAGTAATATATTTTAAAAA
*
104947148 -AATATTTTTATAGCTATTTTATTAGTAATTTAAGATTAGGTTATAT-ATTGTTAGTGTTTAGTG
63 GAATAATTTTATAGCTATTTTATTAGTAATTTAAGATTAGGTTATATAATTGTTAGTGTTTAGTG
* * * * *
104947211 GTTTAGTGTGTATTAGTGTATTGTGATTTTTTTTAGTAATGTATTTAAAAAAATAATTTTATAGT
128 GTTTA--GTATATTAGCGTATTGTAATTTTTTTTAGTAATATATTTAAAAAAATAATTTTATAGC
104947276 TATTTT
191 TATTTT
104947282 GTGTTAGTAT
Statistics
Matches: 184, Mismatches: 7, Indels: 12
0.91 0.03 0.06
Matches are distributed among these distances:
234 22 0.12
235 7 0.04
236 101 0.55
237 54 0.29
ACGTcount: A:0.31, C:0.01, G:0.16, T:0.52
Consensus pattern (235 bp):
TTAGTGTTTAGTAGTTTAGTGTATTAGTGTATTGTGATTTTTTTAGTAATATATTTTAAAAAGAA
TAATTTTATAGCTATTTTATTAGTAATTTAAGATTAGGTTATATAATTGTTAGTGTTTAGTGGTT
TAGTATATTAGCGTATTGTAATTTTTTTTAGTAATATATTTAAAAAAATAATTTTATAGCTATTT
TATTAGTAATTTGAGATTAGGTTATATAAATTGTTACTGT
Found at i:104947322 original size:115 final size:109
Alignment explanation
Indices: 104947068--104947325 Score: 263
Period size: 115 Copynumber: 2.3 Consensus size: 109
104947058 GATTAGGTTA
*
104947068 TATAAATTGTTACTGTTTAGTGGTTTAGT-GTATTAGTGTATTAGTGTATTGTGATTTTTTTTAG
1 TATAAATTGTTA-TGTTTA-TAGTTTAGTGGTATTAGTGTATTAGTGTATTGTGATTTTTTTTAG
* *
104947132 TAATATATTTTTAAAAAATATTTTTATAGCTATTTTATTAGTAATT
64 TAATATATTTTAAAAAAATAATTTTATAGCTATTTTATTAGTAATT
* * *
104947178 TA-AGATTAGGTTATATATTGTTAGTGTTTAGTGGT-TTAGTGTGTATTAGTGTATTGTGATTTT
1 TATAAATT--GTTATGT-TT-ATA--GTTTAGTGGTATTA--GTGTATTAGTGTATTGTGATTTT
* * *
104947241 TTTTAGTAATGTA-TTTAAAAAAATAATTTTATAGTTATTTTGTGTTAGTATATGAT
58 TTTTAGTAATATATTTTAAAAAAATAATTTTATAGCTA-TTT-TATTAGTA-AT--T
104947297 TATAAATTGTTAGTGTTTATAGTTTAGTG
1 TATAAATTGTTA-TGTTTATAGTTTAGTG
104947326 TTTTGTGATT
Statistics
Matches: 120, Mismatches: 12, Indels: 27
0.75 0.08 0.17
Matches are distributed among these distances:
109 4 0.03
110 4 0.03
111 7 0.06
113 10 0.08
114 23 0.19
115 46 0.38
116 7 0.06
117 4 0.03
118 6 0.05
119 5 0.04
120 4 0.03
ACGTcount: A:0.29, C:0.01, G:0.17, T:0.53
Consensus pattern (109 bp):
TATAAATTGTTATGTTTATAGTTTAGTGGTATTAGTGTATTAGTGTATTGTGATTTTTTTTAGTA
ATATATTTTAAAAAAATAATTTTATAGCTATTTTATTAGTAATT
Found at i:104947403 original size:18 final size:18
Alignment explanation
Indices: 104947377--104947441 Score: 69
Period size: 18 Copynumber: 3.5 Consensus size: 18
104947367 TATTATTATA
*
104947377 TATTTATTTGATAATTTG
1 TATTGATTTGATAATTTG
*
104947395 TATTGATTT-ATATTATTATA
1 TATTGATTTGATA--ATT-TG
*
104947415 TATTTATTTGATAATTTG
1 TATTGATTTGATAATTTG
104947433 TATTGATTT
1 TATTGATTT
104947442 ATTAAAATGT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
17 3 0.08
18 17 0.45
19 6 0.16
20 9 0.24
21 3 0.08
ACGTcount: A:0.29, C:0.00, G:0.09, T:0.62
Consensus pattern (18 bp):
TATTGATTTGATAATTTG
Found at i:104947404 original size:22 final size:22
Alignment explanation
Indices: 104947378--104947444 Score: 74
Period size: 22 Copynumber: 3.3 Consensus size: 22
104947368 ATTATTATAT
104947378 ATTTATTTGATAATTTGTATTG
1 ATTTATTTGATAATTTGTATTG
* *
104947400 ATTTA--T-ATTA-TTATA-T-
1 ATTTATTTGATAATTTGTATTG
104947416 ATTTATTTGATAATTTGTATTG
1 ATTTATTTGATAATTTGTATTG
104947438 ATTTATT
1 ATTTATT
104947445 AAAATGTTGA
Statistics
Matches: 35, Mismatches: 4, Indels: 12
0.69 0.08 0.24
Matches are distributed among these distances:
16 5 0.14
17 1 0.03
18 5 0.14
19 6 0.17
20 5 0.14
21 1 0.03
22 12 0.34
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.61
Consensus pattern (22 bp):
ATTTATTTGATAATTTGTATTG
Found at i:104947410 original size:38 final size:38
Alignment explanation
Indices: 104947363--104947443 Score: 162
Period size: 38 Copynumber: 2.1 Consensus size: 38
104947353 ATAATGTAAT
104947363 TTTATATTATTATATATTTATTTGATAATTTGTATTGA
1 TTTATATTATTATATATTTATTTGATAATTTGTATTGA
104947401 TTTATATTATTATATATTTATTTGATAATTTGTATTGA
1 TTTATATTATTATATATTTATTTGATAATTTGTATTGA
104947439 TTTAT
1 TTTAT
104947444 TAAAATGTTG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 43 1.00
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (38 bp):
TTTATATTATTATATATTTATTTGATAATTTGTATTGA
Found at i:104949324 original size:70 final size:71
Alignment explanation
Indices: 104949241--104949403 Score: 310
Period size: 70 Copynumber: 2.3 Consensus size: 71
104949231 CGATTTGTCT
104949241 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACC-AGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
104949305 CTTTCA
66 CTTTCA
*
104949311 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
104949376 CTTTCA
66 CTTTCA
104949382 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
104949404 GATACATCTC
Statistics
Matches: 91, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
70 51 0.56
71 40 0.44
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.34
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:104949441 original size:71 final size:70
Alignment explanation
Indices: 104949241--104949437 Score: 249
Period size: 70 Copynumber: 2.8 Consensus size: 70
104949231 CGATTTGTCT
* * * *
104949241 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACC-AGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
104949305 CTTTCA
65 CTTTCA
* * * *
104949311 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
104949376 CTTTCA
65 CTTTCA
* *
104949382 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
104949438 TACAGGGTGT
Statistics
Matches: 118, Mismatches: 7, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
68 22 0.19
69 1 0.01
70 52 0.44
71 43 0.36
ACGTcount: A:0.21, C:0.28, G:0.18, T:0.33
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:104956370 original size:66 final size:68
Alignment explanation
Indices: 104956292--104956478 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
104956282 TAGTACCACT
*
104956292 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
104956354 CACG
65 CACG
104956358 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
104956423 ATCACG
63 ATCACG
104956429 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
104956479 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:104956403 original size:71 final size:71
Alignment explanation
Indices: 104956315--104956478 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
104956305 CGATTTGTCT
104956315 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
104956380 CTTTCA
66 CTTTCA
104956386 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
104956451 CTTTCA
66 CTTTCA
104956457 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
104956479 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:104956516 original size:71 final size:70
Alignment explanation
Indices: 104956315--104956512 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
104956305 CGATTTGTCT
* * * *
104956315 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
104956380 CTTTCA
65 CTTTCA
* * * *
104956386 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
104956451 CTTTCA
65 CTTTCA
* *
104956457 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
104956513 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:104958840 original size:33 final size:32
Alignment explanation
Indices: 104958803--104958914 Score: 93
Period size: 33 Copynumber: 3.4 Consensus size: 32
104958793 ATTTATCTCA
*
104958803 GTACTCTACTCCTTCCGGCTCGTATCCACC-CAT
1 GTACTCTACTCCTTCCGGC-CGTATCCACCGC-C
* *
104958836 GTACTCAACTCC-TCCAGAGCAGTATCCACCGCC
1 GTACTCTACTCCTTCC-G-GCCGTATCCACCGCC
* * *
104958869 GTACTCTACTCCTCCCGGCCCATATCCACCTCC
1 GTACTCTACTCCTTCCGG-CCGTATCCACCGCC
* *
104958902 ATATTCTACTCCT
1 GTACTCTACTCCT
104958915 CTCGGCTCAA
Statistics
Matches: 64, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
32 4 0.06
33 55 0.86
34 5 0.08
ACGTcount: A:0.19, C:0.44, G:0.11, T:0.27
Consensus pattern (32 bp):
GTACTCTACTCCTTCCGGCCGTATCCACCGCC
Found at i:104961616 original size:46 final size:44
Alignment explanation
Indices: 104961512--104961619 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
104961502 TGTCTTTGAC
** * * *
104961512 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
104961556 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
104961602 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
104961620 TTTCGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:104969003 original size:46 final size:44
Alignment explanation
Indices: 104968899--104969006 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
104968889 TGTCTTTGAC
** * * *
104968899 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
104968943 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
104968989 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
104969007 TTTCGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:104972507 original size:27 final size:27
Alignment explanation
Indices: 104972469--104972521 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
104972459 CATTTGGGCC
*
104972469 CCAAGAAGGCACAACTAGTCGTGCCTA
1 CCAAGAAGGCACAAATAGTCGTGCCTA
104972496 CCAAGAAGGCACAAATAGTCGTGCCT
1 CCAAGAAGGCACAAATAGTCGTGCCT
104972522 GTCAGACAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.34, C:0.28, G:0.23, T:0.15
Consensus pattern (27 bp):
CCAAGAAGGCACAAATAGTCGTGCCTA
Found at i:104972532 original size:27 final size:26
Alignment explanation
Indices: 104972472--104972564 Score: 96
Period size: 27 Copynumber: 3.5 Consensus size: 26
104972462 TTGGGCCCCA
**
104972472 AGAAGGCACAACTAGTCGTGCCTACC
1 AGAAGGCACAACTAGTCGTGCCTGTC
*
104972498 AAGAAGGCACAAATAGTCGTGCCTGTC
1 -AGAAGGCACAACTAGTCGTGCCTGTC
* * *
104972525 AGACAGGCTCAACTAGTTGAGCCTGTC
1 AGA-AGGCACAACTAGTCGTGCCTGTC
*
104972552 AGGTAGGCACAAC
1 A-GAAGGCACAAC
104972565 ATGTATGTAT
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
26 3 0.05
27 51 0.93
28 1 0.02
ACGTcount: A:0.31, C:0.26, G:0.26, T:0.17
Consensus pattern (26 bp):
AGAAGGCACAACTAGTCGTGCCTGTC
Found at i:104973668 original size:29 final size:26
Alignment explanation
Indices: 104973635--104973729 Score: 73
Period size: 29 Copynumber: 3.3 Consensus size: 26
104973625 TGACATATTA
104973635 ATAATATTTTATAATATTAAATAATTTTT
1 ATAAT-TTTTATAATATT--ATAATTTTT
* * * *
104973664 ATAATTTTTTAAAAAAATTATGATATTTA
1 ATAA-TTTTT-ATAATATTATAAT-TTTT
104973693 ATAATTTTTATAGATATTCTATAATTTTT
1 ATAATTTTTATA-ATA-T-TATAATTTTT
104973722 ATAATTTT
1 ATAATTTT
104973730 CAAATTATAC
Statistics
Matches: 52, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
27 2 0.04
28 11 0.21
29 27 0.52
30 12 0.23
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.55
Consensus pattern (26 bp):
ATAATTTTTATAATATTATAATTTTT
Found at i:104973710 original size:20 final size:19
Alignment explanation
Indices: 104973632--104973726 Score: 86
Period size: 20 Copynumber: 4.9 Consensus size: 19
104973622 TCATGACATA
104973632 TTAATAATATTTTATAATAT
1 TTAATAAT-TTTTATAATAT
* *
104973652 TAAATAATTTTTATAATTTT
1 TTAATAATTTTTATAA-TAT
*** *
104973672 TTAA-AAAAATTATGATAT
1 TTAATAATTTTTATAATAT
104973690 TTAATAATTTTTATAGATAT
1 TTAATAATTTTTATA-ATAT
104973710 TCT-ATAATTTTTATAAT
1 T-TAATAATTTTTATAAT
104973727 TTTCAAATTA
Statistics
Matches: 59, Mismatches: 12, Indels: 9
0.74 0.15 0.11
Matches are distributed among these distances:
18 6 0.10
19 23 0.39
20 29 0.49
21 1 0.02
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (19 bp):
TTAATAATTTTTATAATAT
Found at i:104974385 original size:20 final size:19
Alignment explanation
Indices: 104974338--104974391 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
104974328 TACGAAAAAT
104974338 AAAATAAAAATAAATTCAA
1 AAAATAAAAATAAATTCAA
* *
104974357 AAATGTAAAAATAAATTTAA
1 AAA-ATAAAAATAAATTCAA
104974377 GAAAAT-AAAATAAAT
1 -AAAATAAAAATAAAT
104974392 GGACAAATGA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 12 0.40
20 15 0.50
21 3 0.10
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.24
Consensus pattern (19 bp):
AAAATAAAAATAAATTCAA
Found at i:104975266 original size:13 final size:13
Alignment explanation
Indices: 104975248--104975313 Score: 63
Period size: 13 Copynumber: 5.5 Consensus size: 13
104975238 AGATTTTTTT
104975248 CTAAATATTATCA
1 CTAAATATTATCA
104975261 CTAAATA--ATC-
1 CTAAATATTATCA
*
104975271 TTAAATATTATCA
1 CTAAATATTATCA
*
104975284 CTAAATA--ATTA
1 CTAAATATTATCA
104975295 -TAAATATTATCA
1 CTAAATATTATCA
*
104975307 TTAAATA
1 CTAAATA
104975314 ATTCAAAATT
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
10 12 0.28
11 6 0.14
12 6 0.14
13 19 0.44
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:104975279 original size:23 final size:23
Alignment explanation
Indices: 104975249--104975316 Score: 111
Period size: 23 Copynumber: 3.0 Consensus size: 23
104975239 GATTTTTTTC
104975249 TAAATATTATCACTAAATAATCT-
1 TAAATATTATCACTAAATAAT-TA
104975272 TAAATATTATCACTAAATAATTA
1 TAAATATTATCACTAAATAATTA
*
104975295 TAAATATTATCATTAAATAATT
1 TAAATATTATCACTAAATAATT
104975317 CAAAATTTAA
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
22 1 0.02
23 42 0.98
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (23 bp):
TAAATATTATCACTAAATAATTA
Found at i:104980670 original size:8 final size:8
Alignment explanation
Indices: 104980620--104980652 Score: 66
Period size: 8 Copynumber: 4.1 Consensus size: 8
104980610 TTATAGACTA
104980620 AATAAAAT
1 AATAAAAT
104980628 AATAAAAT
1 AATAAAAT
104980636 AATAAAAT
1 AATAAAAT
104980644 AATAAAAT
1 AATAAAAT
104980652 A
1 A
104980653 TCTTATTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:104995901 original size:23 final size:24
Alignment explanation
Indices: 104995855--104995901 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
104995845 ATACACGGAT
*
104995855 TCCAACCCAAACACACCAGTAATA
1 TCCAACCAAAACACACCAGTAATA
104995879 TCCAACCAAAACACACCAG-AATA
1 TCCAACCAAAACACACCAGTAATA
104995902 ATCATGTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.49, C:0.36, G:0.04, T:0.11
Consensus pattern (24 bp):
TCCAACCAAAACACACCAGTAATA
Found at i:104995919 original size:31 final size:28
Alignment explanation
Indices: 104995884--104995984 Score: 102
Period size: 28 Copynumber: 3.5 Consensus size: 28
104995874 TAATATCCAA
104995884 CCAAAACACACCAGAATAATCATGTAATCCT
1 CCAAAACACACCAG-ATAAT-A-GTAATCCT
104995915 CCAAAACACACC-G-TAATTAGATAATCCT
1 CCAAAACACACCAGATAA-TAG-TAATCCT
*
104995943 CC-AAACACACTAGTATAATA-TAATCCAT
1 CCAAAACACACCAG-ATAATAGTAATCC-T
104995971 CCAAAACACACCAG
1 CCAAAACACACCAG
104995985 TATAGCACAT
Statistics
Matches: 61, Mismatches: 2, Indels: 16
0.77 0.03 0.20
Matches are distributed among these distances:
27 15 0.25
28 17 0.28
29 13 0.21
30 4 0.07
31 12 0.20
ACGTcount: A:0.46, C:0.30, G:0.06, T:0.19
Consensus pattern (28 bp):
CCAAAACACACCAGATAATAGTAATCCT
Found at i:104995965 original size:27 final size:27
Alignment explanation
Indices: 104995908--104995988 Score: 92
Period size: 27 Copynumber: 2.9 Consensus size: 27
104995898 AATAATCATG
* *
104995908 TAATCCTCCAAAACACACCGTAATTAGA
1 TAATCCTCCAAAACACACAGT-ATAAGA
*
104995936 TAATCCTCC-AAACACACTAGTATAATA
1 TAATCCTCCAAAACACAC-AGTATAAGA
104995963 TAATCCATCCAAAACACACCAGTATA
1 TAATCC-TCCAAAACACA-CAGTATA
104995989 GCACATAGTG
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
27 18 0.39
28 14 0.30
29 13 0.28
30 1 0.02
ACGTcount: A:0.44, C:0.28, G:0.05, T:0.22
Consensus pattern (27 bp):
TAATCCTCCAAAACACACAGTATAAGA
Found at i:104996249 original size:31 final size:30
Alignment explanation
Indices: 104996214--104996284 Score: 83
Period size: 28 Copynumber: 2.4 Consensus size: 30
104996204 TATCCAACCA
* *
104996214 AAACACACCAGAATAATCATATAATCCTCCC
1 AAACACACCA-AAGAATCACATAATCCTCCC
* *
104996245 AAACACA--ATAGAATCACATAGTCCTCCC
1 AAACACACCAAAGAATCACATAATCCTCCC
104996273 AAACACACCAAA
1 AAACACACCAAA
104996285 TTAGCACAGA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
28 23 0.70
29 1 0.03
30 2 0.06
31 7 0.21
ACGTcount: A:0.48, C:0.32, G:0.04, T:0.15
Consensus pattern (30 bp):
AAACACACCAAAGAATCACATAATCCTCCC
Found at i:104999373 original size:24 final size:24
Alignment explanation
Indices: 104999341--104999411 Score: 124
Period size: 24 Copynumber: 3.0 Consensus size: 24
104999331 CTGTCAGGAG
104999341 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
104999365 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
**
104999389 AGGATTTAGGAGCAGATAAGGGA
1 AGGATTTAGGAGTTGATAAGGGA
104999412 GGAAATCTAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.35, C:0.01, G:0.38, T:0.25
Consensus pattern (24 bp):
AGGATTTAGGAGTTGATAAGGGAT
Found at i:104999423 original size:48 final size:48
Alignment explanation
Indices: 104999341--104999434 Score: 111
Period size: 48 Copynumber: 1.9 Consensus size: 48
104999331 CTGTCAGGAG
** * *
104999341 AGGATTTAGGAGTTGATAAGGGATAGGATTTAGGAGTTGAT-AAGGGAT
1 AGGATTTAGGAGCAGATAAGGGA-AGGATCTAGGAGCTGATCAAGGGAT
104999389 AGGATTTAGGAGCAGATAAGGG-AGGAAATCTAGGAGCTGATCAAGG
1 AGGATTTAGGAGCAGATAAGGGAAGG--ATCTAGGAGCTGATCAAGG
104999435 AACAAGAGGT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
46 3 0.08
48 32 0.82
49 4 0.10
ACGTcount: A:0.35, C:0.04, G:0.37, T:0.23
Consensus pattern (48 bp):
AGGATTTAGGAGCAGATAAGGGAAGGATCTAGGAGCTGATCAAGGGAT
Found at i:105000867 original size:27 final size:27
Alignment explanation
Indices: 105000829--105000938 Score: 125
Period size: 27 Copynumber: 4.1 Consensus size: 27
105000819 GAAGCGTCCA
*
105000829 GGTGGCTATGCCACAATTATCTGATCT
1 GGTGGCTCTGCCACAATTATCTGATCT
*
105000856 GGTGGCTCTGCCACATATT-TCTGTTCT
1 GGTGGCTCTGCCACA-ATTATCTGATCT
**
105000883 GGTGGCTCTGCCATGATTATCTGTATCT
1 GGTGGCTCTGCCACAATTATCTG-ATCT
* * *
105000911 GGTGACTCTGTCAC-ATTATCTGTTCT
1 GGTGGCTCTGCCACAATTATCTGATCT
105000937 GG
1 GG
105000939 CAGCCATGCT
Statistics
Matches: 71, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
26 8 0.11
27 46 0.65
28 17 0.24
ACGTcount: A:0.15, C:0.23, G:0.24, T:0.38
Consensus pattern (27 bp):
GGTGGCTCTGCCACAATTATCTGATCT
Done.