Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032253.1 Gossypioides kirkii chromosome KI_11
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: 55708359
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 58 of 182
Found at i:18971505 original size:13 final size:14
Alignment explanation
Indices: 18971468--18971500 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
18971458 TGTTTCACTG
*
18971468 AAAATTATTTTTGA
1 AAAATGATTTTTGA
18971482 AAAATGATTTTTGA
1 AAAATGATTTTTGA
18971496 AAAAT
1 AAAAT
18971501 CTTTTATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (14 bp):
AAAATGATTTTTGA
Found at i:18972755 original size:31 final size:28
Alignment explanation
Indices: 18972708--18972770 Score: 74
Period size: 31 Copynumber: 2.1 Consensus size: 28
18972698 ACTTTTTTTA
18972708 AAATAAAAACTTAATAGTCTC-GTAACTT
1 AAATAAAAACTTAATAGT-TCAGTAACTT
*
18972736 AAATAAAAACTTTTGAATAGTTCAGTCACTT
1 AAATAAAAAC--TT-AATAGTTCAGTAACTT
18972767 AAAT
1 AAAT
18972771 GAAATTTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
28 10 0.33
30 4 0.13
31 16 0.53
ACGTcount: A:0.46, C:0.13, G:0.08, T:0.33
Consensus pattern (28 bp):
AAATAAAAACTTAATAGTTCAGTAACTT
Found at i:18976696 original size:22 final size:23
Alignment explanation
Indices: 18976666--18976712 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
18976656 ACAATATCTA
18976666 AACATTAATAGTAAAATAGTAGC
1 AACATTAATAGTAAAATAGTAGC
* *
18976689 AACA-TAATAGTGAAATGGTAGC
1 AACATTAATAGTAAAATAGTAGC
18976711 AA
1 AA
18976713 AACAGTAGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.51, C:0.09, G:0.17, T:0.23
Consensus pattern (23 bp):
AACATTAATAGTAAAATAGTAGC
Found at i:18977578 original size:23 final size:22
Alignment explanation
Indices: 18977542--18977591 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 22
18977532 TATAAATAAA
18977542 AATTTAAATAAATATAATTTAT
1 AATTTAAATAAATATAATTTAT
18977564 AATTTATAATAAATATAATTTAT
1 AATTTA-AATAAATATAATTTAT
18977587 AATTT
1 AATTT
18977592 TCCAAGGTCG
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 6 0.22
23 21 0.78
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AATTTAAATAAATATAATTTAT
Found at i:18978119 original size:22 final size:21
Alignment explanation
Indices: 18978071--18978119 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 21
18978061 TTTTACTTTG
*
18978071 TAATTA-TTATTTTTTCAATA
1 TAATTATTTATTTTTTCAAAA
*
18978091 TAA--ATTTATTTTTTATAAAA
1 TAATTATTTATTTTTT-CAAAA
18978111 TAATTATTT
1 TAATTATTT
18978120 GTTTGCATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
18 1 0.04
19 9 0.39
20 9 0.39
22 4 0.17
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (21 bp):
TAATTATTTATTTTTTCAAAA
Found at i:18979881 original size:79 final size:79
Alignment explanation
Indices: 18979750--18979986 Score: 350
Period size: 79 Copynumber: 3.0 Consensus size: 79
18979740 CCAACAATTA
* *
18979750 TGGCACCCAGTGCCTAGCGGAT-AATCGCAAAAGTGAGCCCAGCTCTAGTTGGATTAACCAACAA
1 TGGCACCCAGTGCCTAGCGGATAAACCGCAAATGTGAGCCCAGCTCTAGTTGGATTAACCAACAA
* *
18979814 TGTCCGTCAAATCT
66 TATCCGTCAAATCC
* * *
18979828 TGGCACCCAGTACCTAGCGGATAAACCGCAAATGTGAGCCTAGTTCTAGTTGGATTAACCAACAA
1 TGGCACCCAGTGCCTAGCGGATAAACCGCAAATGTGAGCCCAGCTCTAGTTGGATTAACCAACAA
18979893 TATCCGTCAAATCC
66 TATCCGTCAAATCC
* * * * *
18979907 TGGCACCTAGTGCCTAGCGAATAAACCACAAATGTGAGCCCAGCTCTAGTTAGATTTACCAACAA
1 TGGCACCCAGTGCCTAGCGGATAAACCGCAAATGTGAGCCCAGCTCTAGTTGGATTAACCAACAA
*
18979972 TATCCATCAAATCC
66 TATCCGTCAAATCC
18979986 T
1 T
18979987 CAATTATTAA
Statistics
Matches: 142, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
78 21 0.15
79 121 0.85
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.23
Consensus pattern (79 bp):
TGGCACCCAGTGCCTAGCGGATAAACCGCAAATGTGAGCCCAGCTCTAGTTGGATTAACCAACAA
TATCCGTCAAATCC
Found at i:18984512 original size:11 final size:12
Alignment explanation
Indices: 18984490--18984529 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
18984480 CACATATGAG
18984490 TTTTGATGATAA
1 TTTTGATGATAA
18984502 TTTTG-TGATAA
1 TTTTGATGATAA
* *
18984513 TTTTGAAGAGAA
1 TTTTGATGATAA
18984525 TTTTG
1 TTTTG
18984530 TTCCCAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 11 0.44
12 14 0.56
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (12 bp):
TTTTGATGATAA
Found at i:18991747 original size:17 final size:17
Alignment explanation
Indices: 18991714--18991746 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
18991704 AATTCAATTG
18991714 ATATATTTAAATATTTT
1 ATATATTTAAATATTTT
18991731 ATATA-TTAAATATTTT
1 ATATATTTAAATATTTT
18991747 TTTTAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
ATATATTTAAATATTTT
Found at i:18994175 original size:6 final size:6
Alignment explanation
Indices: 18994164--18994216 Score: 81
Period size: 6 Copynumber: 8.8 Consensus size: 6
18994154 GGCCATTAAA
*
18994164 TATGTT TATGTT TATGTT TATGTT TATGTT TATGTT CT-TATT TATGTT
1 TATGTT TATGTT TATGTT TATGTT TATGTT TATGTT -TATGTT TATGTT
18994212 TATGT
1 TATGT
18994217 ATGCAAATAT
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
5 1 0.02
6 41 0.95
7 1 0.02
ACGTcount: A:0.17, C:0.02, G:0.15, T:0.66
Consensus pattern (6 bp):
TATGTT
Found at i:18997210 original size:25 final size:25
Alignment explanation
Indices: 18997176--18997225 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
18997166 TTTGTTTCCT
18997176 TTCCTTCTTCAAAAATTTACTGTTA
1 TTCCTTCTTCAAAAATTTACTGTTA
*
18997201 TTCCTTCTTCAAAAATTTGCTGTTA
1 TTCCTTCTTCAAAAATTTACTGTTA
18997226 AACAGATCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.26, C:0.20, G:0.06, T:0.48
Consensus pattern (25 bp):
TTCCTTCTTCAAAAATTTACTGTTA
Found at i:18997298 original size:27 final size:27
Alignment explanation
Indices: 18997260--18997320 Score: 104
Period size: 27 Copynumber: 2.3 Consensus size: 27
18997250 GCATTGACAA
18997260 AGGCACCACTAGTGCCGCCTACCCAGT
1 AGGCACCACTAGTGCCGCCTACCCAGT
**
18997287 AGGCACCACTAGTGCCGCCTACCTGGT
1 AGGCACCACTAGTGCCGCCTACCCAGT
18997314 AGGCACC
1 AGGCACC
18997321 TCTTGTAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.21, C:0.39, G:0.25, T:0.15
Consensus pattern (27 bp):
AGGCACCACTAGTGCCGCCTACCCAGT
Found at i:18997541 original size:20 final size:23
Alignment explanation
Indices: 18997518--18997558 Score: 61
Period size: 20 Copynumber: 1.9 Consensus size: 23
18997508 ATTTAATTTA
18997518 ATTTTTT-TA-AATT-TTATAAT
1 ATTTTTTCTACAATTCTTATAAT
18997538 ATTTTTTCTACAATTCTTATA
1 ATTTTTTCTACAATTCTTATA
18997559 TTTATTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 2 0.11
22 4 0.22
23 5 0.28
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (23 bp):
ATTTTTTCTACAATTCTTATAAT
Found at i:18997715 original size:27 final size:27
Alignment explanation
Indices: 18997685--18997747 Score: 108
Period size: 27 Copynumber: 2.3 Consensus size: 27
18997675 CCTGATAAAA
*
18997685 AGGCACCATTGGTGCCGCCTGACAGGT
1 AGGCACCACTGGTGCCGCCTGACAGGT
*
18997712 AGGCACCACTGGTGCCGCCTGTCAGGT
1 AGGCACCACTGGTGCCGCCTGACAGGT
18997739 AGGCACCAC
1 AGGCACCAC
18997748 CCATTTATAC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.19, C:0.33, G:0.32, T:0.16
Consensus pattern (27 bp):
AGGCACCACTGGTGCCGCCTGACAGGT
Found at i:19000791 original size:18 final size:18
Alignment explanation
Indices: 19000768--19000808 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
19000758 TCAAGCCAAG
19000768 TTGACCGACCGTTGACCA
1 TTGACCGACCGTTGACCA
* *
19000786 TTGACCGATCGTTGACCG
1 TTGACCGACCGTTGACCA
19000804 TTGAC
1 TTGAC
19000809 AAACCATTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.27
Consensus pattern (18 bp):
TTGACCGACCGTTGACCA
Found at i:19000865 original size:27 final size:27
Alignment explanation
Indices: 19000821--19000908 Score: 68
Period size: 27 Copynumber: 3.2 Consensus size: 27
19000811 ACCATTGACT
* * *
19000821 TTGACCGTTAACAATTGACAGTTGATCA
1 TTGACCGTTGAC-TTTGACAGTTGACCA
* * *
19000849 TTGACCGTTGTCTTTGACCGTTGACCG
1 TTGACCGTTGACTTTGACAGTTGACCA
* * ** *
19000876 TTGACTGTTGACTTTAATTGTTAACCA
1 TTGACCGTTGACTTTGACAGTTGACCA
19000903 TTGACC
1 TTGACC
19000909 AACTTTGACT
Statistics
Matches: 46, Mismatches: 14, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
27 36 0.78
28 10 0.22
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.38
Consensus pattern (27 bp):
TTGACCGTTGACTTTGACAGTTGACCA
Found at i:19000887 original size:14 final size:13
Alignment explanation
Indices: 19000815--19000890 Score: 62
Period size: 14 Copynumber: 5.6 Consensus size: 13
19000805 TGACAAACCA
19000815 TTGACTTTGACCG
1 TTGACTTTGACCG
* * *
19000828 TTAACAATTGACAG
1 TTGAC-TTTGACCG
*
19000842 TTGATCATTGACCG
1 TTGA-CTTTGACCG
*
19000856 TTGTCTTTGACCG
1 TTGACTTTGACCG
* *
19000869 TTGACCGTTGACTG
1 TTGA-CTTTGACCG
19000883 TTGACTTT
1 TTGACTTT
19000891 AATTGTTAAC
Statistics
Matches: 49, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
13 18 0.37
14 30 0.61
15 1 0.02
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.39
Consensus pattern (13 bp):
TTGACTTTGACCG
Found at i:19010325 original size:21 final size:21
Alignment explanation
Indices: 19010299--19010346 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
19010289 AATTAACAGA
19010299 AAGTACCAAAGTACTTAATAG
1 AAGTACCAAAGTACTTAATAG
19010320 AAGTACCAAAGTACTTAATAG
1 AAGTACCAAAGTACTTAATAG
19010341 AAGTAC
1 AAGTAC
19010347 ATAACTGGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.48, C:0.15, G:0.15, T:0.23
Consensus pattern (21 bp):
AAGTACCAAAGTACTTAATAG
Found at i:19010387 original size:22 final size:22
Alignment explanation
Indices: 19010361--19010416 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
19010351 CTGGTGGGGA
19010361 AACAGAAGCACACACAGTGCTG
1 AACAGAAGCACACACAGTGCTG
19010383 AACAGAAGCACACACAGTGCTG
1 AACAGAAGCACACACAGTGCTG
19010405 AACAGTAAGCAC
1 AACAG-AAGCAC
19010417 GCTAGCGTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 27 0.82
23 6 0.18
ACGTcount: A:0.43, C:0.27, G:0.21, T:0.09
Consensus pattern (22 bp):
AACAGAAGCACACACAGTGCTG
Found at i:19012972 original size:22 final size:22
Alignment explanation
Indices: 19012941--19012996 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
19012931 GACCGACCGT
* *
19012941 TGACTATTGACCCACTGTTCA-
1 TGACTGTTGACCCACCGTTCAC
*
19012962 TCGACTGTTGACCTACCGTTCAC
1 T-GACTGTTGACCCACCGTTCAC
*
19012985 TGACCGTTGACC
1 TGACTGTTGACC
19012997 GATCGTTGAC
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 1 0.03
22 27 0.93
23 1 0.03
ACGTcount: A:0.20, C:0.32, G:0.18, T:0.30
Consensus pattern (22 bp):
TGACTGTTGACCCACCGTTCAC
Found at i:19012997 original size:18 final size:18
Alignment explanation
Indices: 19012976--19013017 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
19012966 CTGTTGACCT
*
19012976 ACCGTTCACTGACCGTTG
1 ACCGATCACTGACCGTTG
**
19012994 ACCGATCGTTGACCGTTG
1 ACCGATCACTGACCGTTG
19013012 ACCGAT
1 ACCGAT
19013018 TGTTGACCGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.19, C:0.31, G:0.24, T:0.26
Consensus pattern (18 bp):
ACCGATCACTGACCGTTG
Found at i:19013003 original size:11 final size:11
Alignment explanation
Indices: 19012963--19013076 Score: 74
Period size: 11 Copynumber: 10.2 Consensus size: 11
19012953 CACTGTTCAT
*
19012963 CGACTGTTGAC
1 CGACCGTTGAC
* *
19012974 CTACCGTTCAC
1 CGACCGTTGAC
*
19012985 TGACCGTTGAC
1 CGACCGTTGAC
*
19012996 CGATCGTT---
1 CGACCGTTGAC
19013004 -GACCGTTGAC
1 CGACCGTTGAC
**
19013014 CGATTGTTGAC
1 CGACCGTTGAC
*
19013025 CGACCATTGAC
1 CGACCGTTGAC
19013036 CGTTGACCGTTGAC
1 C---GACCGTTGAC
19013050 CGACCGTTGAC
1 CGACCGTTGAC
19013061 CGTTGACCGTTGAC
1 C---GACCGTTGAC
19013075 CG
1 CG
19013077 TTGATAGTTG
Statistics
Matches: 78, Mismatches: 15, Indels: 20
0.69 0.13 0.18
Matches are distributed among these distances:
7 6 0.08
11 51 0.65
14 21 0.27
ACGTcount: A:0.18, C:0.31, G:0.25, T:0.26
Consensus pattern (11 bp):
CGACCGTTGAC
Found at i:19013022 original size:18 final size:18
Alignment explanation
Indices: 19012985--19013069 Score: 98
Period size: 18 Copynumber: 4.7 Consensus size: 18
19012975 TACCGTTCAC
*
19012985 TGACCGTTGACCGATCGT
1 TGACCGTTGACCGACCGT
**
19013003 TGACCGTTGACCGATTGT
1 TGACCGTTGACCGACCGT
*** **
19013021 TGACCGACCATTGACCGT
1 TGACCGTTGACCGACCGT
19013039 TGACCGTTGACCGACCGT
1 TGACCGTTGACCGACCGT
19013057 TGACCGTTGACCG
1 TGACCGTTGACCG
19013070 TTGACCGTTG
Statistics
Matches: 54, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 54 1.00
ACGTcount: A:0.18, C:0.29, G:0.27, T:0.26
Consensus pattern (18 bp):
TGACCGTTGACCGACCGT
Found at i:19013041 original size:7 final size:7
Alignment explanation
Indices: 19013026--19013215 Score: 128
Period size: 7 Copynumber: 28.4 Consensus size: 7
19013016 ATTGTTGACC
*
19013026 GACCATT
1 GACCGTT
19013033 GACCGTT
1 GACCGTT
19013040 GACCGTT
1 GACCGTT
19013047 GACC---
1 GACCGTT
19013051 GACCGTT
1 GACCGTT
19013058 GACCGTT
1 GACCGTT
19013065 GACCGTT
1 GACCGTT
19013072 GACCGTT
1 GACCGTT
**
19013079 GATAGTT
1 GACCGTT
*
19013086 GA-CTTT
1 GACCGTT
19013092 GACCGTT
1 GACCGTT
19013099 GACCGTT
1 GACCGTT
* *
19013106 -AACTTT
1 GACCGTT
*
19013112 GATCGTT
1 GACCGTT
**
19013119 GATAGTT
1 GACCGTT
*
19013126 GA-CTTT
1 GACCGTT
**
19013132 GACTATT
1 GACCGTT
19013139 GACCGTT
1 GACCGTT
* *
19013146 -AACTTT
1 GACCGTT
*
19013152 GACCATT
1 GACCGTT
*
19013159 GATCGTT
1 GACCGTT
*
19013166 GA-CTTT
1 GACCGTT
19013172 GACCGTT
1 GACCGTT
*
19013179 GACTGTT
1 GACCGTT
*
19013186 GACTGTT
1 GACCGTT
*
19013193 GA-CTTT
1 GACCGTT
*
19013199 GATCGTT
1 GACCGTT
19013206 GACCGTT
1 GACCGTT
19013213 GAC
1 GAC
19013216 TTTGACCCTT
Statistics
Matches: 144, Mismatches: 30, Indels: 18
0.75 0.16 0.09
Matches are distributed among these distances:
4 4 0.03
6 25 0.17
7 115 0.80
ACGTcount: A:0.19, C:0.22, G:0.24, T:0.36
Consensus pattern (7 bp):
GACCGTT
Found at i:19013051 original size:25 final size:25
Alignment explanation
Indices: 19012985--19013076 Score: 130
Period size: 25 Copynumber: 3.5 Consensus size: 25
19012975 TACCGTTCAC
*
19012985 TGACCGTTGACCGATCGTTGACCGT
1 TGACCGTTGACCGACCGTTGACCGT
*
19013010 TGACCGATTGTTGACCGACCATTGACCGT
1 TGACC----GTTGACCGACCGTTGACCGT
19013039 TGACCGTTGACCGACCGTTGACCGT
1 TGACCGTTGACCGACCGTTGACCGT
19013064 TGACCGTTGACCG
1 TGACCGTTGACCG
19013077 TTGATAGTTG
Statistics
Matches: 60, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
25 37 0.62
29 23 0.38
ACGTcount: A:0.17, C:0.29, G:0.27, T:0.26
Consensus pattern (25 bp):
TGACCGTTGACCGACCGTTGACCGT
Found at i:19013128 original size:40 final size:40
Alignment explanation
Indices: 19013051--19013208 Score: 192
Period size: 40 Copynumber: 3.9 Consensus size: 40
19013041 ACCGTTGACC
* *
19013051 GACCGTTGACCGTTGACCGTTGACCGTTGATAGTTGACTTT
1 GACCGTTGACCGTT-AACTTTGACCGTTGATAGTTGACTTT
*
19013092 GACCGTTGACCGTTAACTTTGATCGTTGATAGTTGACTTT
1 GACCGTTGACCGTTAACTTTGACCGTTGATAGTTGACTTT
** * *
19013132 GACTATTGACCGTTAACTTTGACCATTGATCGTTGACTTT
1 GACCGTTGACCGTTAACTTTGACCGTTGATAGTTGACTTT
* * * *
19013172 GACCGTTGACTGTTGACTGTTGA-CTTTGATCGTTGAC
1 GACCGTTGACCGTTAACT-TTGACCGTTGATAGTTGAC
19013209 CGTTGACTTT
Statistics
Matches: 103, Mismatches: 13, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
40 85 0.83
41 18 0.17
ACGTcount: A:0.19, C:0.20, G:0.23, T:0.38
Consensus pattern (40 bp):
GACCGTTGACCGTTAACTTTGACCGTTGATAGTTGACTTT
Found at i:19013220 original size:20 final size:20
Alignment explanation
Indices: 19013031--19013208 Score: 173
Period size: 20 Copynumber: 8.9 Consensus size: 20
19013021 TGACCGACCA
19013031 TTGACCGTTGACCGTTGAC-
1 TTGACCGTTGACCGTTGACT
* *
19013050 -CGACCGTTGACCGTTGACCG
1 TTGACCGTTGACCGTTGA-CT
**
19013070 TTGACCGTTGATAGTTGACT
1 TTGACCGTTGACCGTTGACT
*
19013090 TTGACCGTTGACCGTTAACT
1 TTGACCGTTGACCGTTGACT
* **
19013110 TTGATCGTTGATAGTTGACT
1 TTGACCGTTGACCGTTGACT
** *
19013130 TTGACTATTGACCGTTAACT
1 TTGACCGTTGACCGTTGACT
* *
19013150 TTGACCATTGATCGTTGACT
1 TTGACCGTTGACCGTTGACT
*
19013170 TTGACCGTTGACTGTTGACT
1 TTGACCGTTGACCGTTGACT
* *
19013190 GTTGA-CTTTGATCGTTGAC
1 -TTGACCGTTGACCGTTGAC
19013209 CGTTGACTTT
Statistics
Matches: 128, Mismatches: 27, Indels: 7
0.79 0.17 0.04
Matches are distributed among these distances:
18 16 0.12
19 1 0.01
20 93 0.73
21 18 0.14
ACGTcount: A:0.19, C:0.21, G:0.24, T:0.37
Consensus pattern (20 bp):
TTGACCGTTGACCGTTGACT
Found at i:19028954 original size:60 final size:60
Alignment explanation
Indices: 19028861--19028973 Score: 199
Period size: 60 Copynumber: 1.9 Consensus size: 60
19028851 TTTTTTCGAA
* *
19028861 CAAATTTATTTATAACAATTAATATACTTTGTATTATTATCCTTAAATGGTTTAGGGTTT
1 CAAATTCAATTATAACAATTAATATACTTTGTATTATTATCCTTAAATGGTTTAGGGTTT
*
19028921 CAAATTCAATTATTACAATTAATATACTTTGTATTATTATCCTTAAATGGTTT
1 CAAATTCAATTATAACAATTAATATACTTTGTATTATTATCCTTAAATGGTTT
19028974 TTGCATGCAA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
60 50 1.00
ACGTcount: A:0.35, C:0.10, G:0.08, T:0.48
Consensus pattern (60 bp):
CAAATTCAATTATAACAATTAATATACTTTGTATTATTATCCTTAAATGGTTTAGGGTTT
Found at i:19031630 original size:3 final size:3
Alignment explanation
Indices: 19031622--19031654 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
19031612 ATAAATTGAA
19031622 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
19031655 TTATTACAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:19036554 original size:42 final size:41
Alignment explanation
Indices: 19036480--19036964 Score: 456
Period size: 41 Copynumber: 11.8 Consensus size: 41
19036470 AAAGGTAAAG
** * *
19036480 CATTAGCGGCGC-TTAACAAAAGCGCCGCTAAAGGTGGGGT
1 CATTAGCGGCGCTTTCCCACAAGCGCCGCTAAAGGTCGGGT
*
19036520 CATTAGCGGCGCTTTACCCACAAGCGCCGCTAAAGGTGGGGT
1 CATTAGCGGCGCTTT-CCCACAAGCGCCGCTAAAGGTCGGGT
** * **
19036562 CATTAGCGGCGCTTTATCACAAGCGCCGCTAAAGTTCAAGT
1 CATTAGCGGCGCTTTCCCACAAGCGCCGCTAAAGGTCGGGT
* * * *
19036603 TATTAGCGGCGCTTTCTCTA-ATGCGCCGCTAAAGGTAGGGT
1 CATTAGCGGCGCTTTC-CCACAAGCGCCGCTAAAGGTCGGGT
* * * *
19036644 AATTAGCGGCGCTTTCCCTCAAGCGCCGCTAAAGGCCAGGT
1 CATTAGCGGCGCTTTCCCACAAGCGCCGCTAAAGGTCGGGT
* ** * ** *
19036685 AATTAGCGGCGCTTTAACTCAAGCGCCGCTAAAGGTATGAT
1 CATTAGCGGCGCTTTCCCACAAGCGCCGCTAAAGGTCGGGT
*** * *
19036726 CATTAGCGGCGCTTTCCTTGAAGCGCCACGAAAAGGTCGGGT
1 CATTAGCGGCGCTTTCCCACAAGCGCCGC-TAAAGGTCGGGT
* * * *
19036768 CATTAGCGACGCTTTCCCTCAAGCGCCGCTAAAGGTAGGAT
1 CATTAGCGGCGCTTTCCCACAAGCGCCGCTAAAGGTCGGGT
***
19036809 CATTTAGCGGCGCTTTCATTCAAGCGCCGCTAAAAGGTCGGGT
1 CA-TTAGCGGCGCTTTCCCACAAGCGCCGCT-AAAGGTCGGGT
* * * *
19036852 CATTAGCGGCACTTTTCCTCAAGCGCCGCTAAAGTTCGGGT
1 CATTAGCGGCGCTTTCCCACAAGCGCCGCTAAAGGTCGGGT
** * * *
19036893 CATTAGCGGCGCTTTTCTAATAAGCGTCGCTAAAGGT-GTG-
1 CATTAGCGGCGC-TTTCCCACAAGCGCCGCTAAAGGTCGGGT
* *
19036933 AATTAGCGGCGCTTTCCCATAAGCGCCGCTAA
1 CATTAGCGGCGCTTTCCCACAAGCGCCGCTAA
19036965 TTTATTTAAA
Statistics
Matches: 366, Mismatches: 71, Indels: 17
0.81 0.16 0.04
Matches are distributed among these distances:
39 17 0.05
40 24 0.07
41 176 0.48
42 138 0.38
43 11 0.03
ACGTcount: A:0.23, C:0.26, G:0.27, T:0.24
Consensus pattern (41 bp):
CATTAGCGGCGCTTTCCCACAAGCGCCGCTAAAGGTCGGGT
Found at i:19036677 original size:123 final size:122
Alignment explanation
Indices: 19036440--19036964 Score: 514
Period size: 123 Copynumber: 4.3 Consensus size: 122
19036430 AAAGGTAAAA
* * * ** **
19036440 CATTAGCGGCGCTTT-TCTTAATGCGCCGCAAAAGGTAAAG-CATTAGCGGCGC-TTAACAAAAG
1 CATTAGCGGCGCTTTATCTCAA-GCGCCGCTAAAGGTCAAGTCATTAGCGGCGCTTTCTCTCAAG
* *
19036502 CGCCGCTAAAGGTGGGGTCATTAGCGGCGCTTTACCCACAAGCGCCGCTAAAGGTGGGGT
65 CGCCGCTAAAGGTCGGGTCATTAGCGGCGCTTT-CCCTCAAGCGCCGCTAAAGGT-GGGT
* * *
19036562 CATTAGCGGCGCTTTATCACAAGCGCCGCTAAAGTTCAAGTTATTAGCGGCGCTTTCTCT-AATG
1 CATTAGCGGCGCTTTATCTCAAGCGCCGCTAAAGGTCAAGTCATTAGCGGCGCTTTCTCTCAA-G
* * **
19036626 CGCCGCTAAAGGTAGGGTAATTAGCGGCGCTTTCCCTCAAGCGCCGCTAAAGGCCAGGT
65 CGCCGCTAAAGGTCGGGTCATTAGCGGCGCTTTCCCTCAAGCGCCGCTAAAGG-TGGGT
* * * *
19036685 AATTAGCGGCGCTTTAACTCAAGCGCCGCTAAAGGT-ATGATCATTAGCGGCGCTTTC-CTTGAA
1 CATTAGCGGCGCTTTATCTCAAGCGCCGCTAAAGGTCAAG-TCATTAGCGGCGCTTTCTC-TCAA
* * * *
19036748 GCGCCACGAAAAGGTCGGGTCATTAGCGACGCTTTCCCTCAAGCGCCGCTAAAGGTAGGAT
64 GCGCCGC-TAAAGGTCGGGTCATTAGCGGCGCTTTCCCTCAAGCGCCGCTAAAGGT-GGGT
** *
19036809 CATTTAGCGGCGCTTTCAT-TCAAGCGCCGCTAAAAGGTCGGGTCATTAGCGGCACTTT-TCCTC
1 CA-TTAGCGGCGCTTT-ATCTCAAGCGCCGCT-AAAGGTCAAGTCATTAGCGGCGCTTTCT-CTC
* * * * *
19036872 AAGCGCCGCTAAAGTTCGGGTCATTAGCGGCGCTTT-TCTAATAAGCGTCGCTAAAGGTGTG-
62 AAGCGCCGCTAAAGGTCGGGTCATTAGCGGCGCTTTCCCT--CAAGCGCCGCTAAAGGTGGGT
* **
19036933 AATTAGCGGCGCTTTCCCAT-AAGCGCCGCTAA
1 CATTAGCGGCGCTTTATC-TCAAGCGCCGCTAA
19036965 TTTATTTAAA
Statistics
Matches: 337, Mismatches: 46, Indels: 40
0.80 0.11 0.09
Matches are distributed among these distances:
122 35 0.10
123 117 0.35
124 87 0.26
125 50 0.15
126 46 0.14
127 2 0.01
ACGTcount: A:0.24, C:0.26, G:0.27, T:0.24
Consensus pattern (122 bp):
CATTAGCGGCGCTTTATCTCAAGCGCCGCTAAAGGTCAAGTCATTAGCGGCGCTTTCTCTCAAGC
GCCGCTAAAGGTCGGGTCATTAGCGGCGCTTTCCCTCAAGCGCCGCTAAAGGTGGGT
Found at i:19038994 original size:42 final size:42
Alignment explanation
Indices: 19038935--19039056 Score: 235
Period size: 42 Copynumber: 2.9 Consensus size: 42
19038925 AGGACTGGAA
*
19038935 AATTTTAAACCCTTGTTCTGCTCTTACTGCTATAGTTGATTG
1 AATTTTAAACCCTTGTTCTGCTCTTACTGCTATAGTCGATTG
19038977 AATTTTAAACCCTTGTTCTGCTCTTACTGCTATAGTCGATTG
1 AATTTTAAACCCTTGTTCTGCTCTTACTGCTATAGTCGATTG
19039019 AATTTTAAACCCTTGTTCTGCTCTTACTGCTATAGTCG
1 AATTTTAAACCCTTGTTCTGCTCTTACTGCTATAGTCG
19039057 GTTATGGCAA
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
42 79 1.00
ACGTcount: A:0.21, C:0.21, G:0.14, T:0.43
Consensus pattern (42 bp):
AATTTTAAACCCTTGTTCTGCTCTTACTGCTATAGTCGATTG
Found at i:19040320 original size:66 final size:66
Alignment explanation
Indices: 19040214--19040370 Score: 217
Period size: 66 Copynumber: 2.4 Consensus size: 66
19040204 CAAATTGCTC
*
19040214 AACTTAAAGAGGAGGCTGCAACGAGAGAAGCAGAGGCTCAAAAAAAATATGATGAACTCCATC-T
1 AACTTAAAGAGGAGGCTGCAACGAGAGAAGCAGAGGCTCAAAAAAAATATGAAGAACTCCA-CAT
19040278 AA
65 AA
* ** *
19040280 AACTTAAAGAGGAGGTTGCAGTGAGAGAAGCAGAGTCTCAAAAAAAATATGAAGAACTCCACATA
1 AACTTAAAGAGGAGGCTGCAACGAGAGAAGCAGAGGCTCAAAAAAAATATGAAGAACTCCACATA
*
19040345 C
66 A
* * *
19040346 AACTTAAAGTGGAGGCAGCAGCGAG
1 AACTTAAAGAGGAGGCTGCAACGAG
19040371 GCAAGCGGAG
Statistics
Matches: 80, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
65 1 0.01
66 79 0.99
ACGTcount: A:0.44, C:0.16, G:0.25, T:0.15
Consensus pattern (66 bp):
AACTTAAAGAGGAGGCTGCAACGAGAGAAGCAGAGGCTCAAAAAAAATATGAAGAACTCCACATA
A
Found at i:19040373 original size:11 final size:11
Alignment explanation
Indices: 19040357--19040394 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
19040347 ACTTAAAGTG
19040357 GAGGCAGCAGC
1 GAGGCAGCAGC
19040368 GAGGCA--AGC
1 GAGGCAGCAGC
19040377 GGAGGCAGCAGC
1 -GAGGCAGCAGC
19040389 GAGGCA
1 GAGGCA
19040395 AGCGAAGGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
9 3 0.12
10 6 0.25
11 12 0.50
12 3 0.12
ACGTcount: A:0.29, C:0.24, G:0.47, T:0.00
Consensus pattern (11 bp):
GAGGCAGCAGC
Found at i:19040382 original size:21 final size:21
Alignment explanation
Indices: 19040356--19040408 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
19040346 AACTTAAAGT
19040356 GGAGGCAGCAGCGAGGCAAGC
1 GGAGGCAGCAGCGAGGCAAGC
19040377 GGAGGCAGCAGCGAGGCAAGC
1 GGAGGCAGCAGCGAGGCAAGC
* *
19040398 GAAGGAAGCAG
1 GGAGGCAGCAG
19040409 AGGCTACAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.32, C:0.21, G:0.47, T:0.00
Consensus pattern (21 bp):
GGAGGCAGCAGCGAGGCAAGC
Found at i:19040772 original size:43 final size:43
Alignment explanation
Indices: 19040709--19040822 Score: 201
Period size: 43 Copynumber: 2.7 Consensus size: 43
19040699 CTATTATATT
*
19040709 AGCGGCGCTTTTGGATAAAGCGCCGCTAAAGAACATGGCCTTC
1 AGCGGCGCTTGTGGATAAAGCGCCGCTAAAGAACATGGCCTTC
*
19040752 AGCGGCGCTTGTGGAAAAAGCGCCGCTAAAGAACATGGCCTTC
1 AGCGGCGCTTGTGGATAAAGCGCCGCTAAAGAACATGGCCTTC
*
19040795 AGTGGCGCTTGTGGATAAAGCGCCGCTA
1 AGCGGCGCTTGTGGATAAAGCGCCGCTA
19040823 TTTTTTGCGG
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 67 1.00
ACGTcount: A:0.25, C:0.25, G:0.31, T:0.19
Consensus pattern (43 bp):
AGCGGCGCTTGTGGATAAAGCGCCGCTAAAGAACATGGCCTTC
Found at i:19051446 original size:12 final size:12
Alignment explanation
Indices: 19051431--19051472 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
19051421 GTTCAATTAT
19051431 ATGTTCGTGAAC
1 ATGTTCGTGAAC
**
19051443 ATGTTCGTTTA-
1 ATGTTCGTGAAC
*
19051454 ATGTTCGTGAGC
1 ATGTTCGTGAAC
19051466 ATGTTCG
1 ATGTTCG
19051473 ATTAAGTTAA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
11 8 0.33
12 16 0.67
ACGTcount: A:0.19, C:0.14, G:0.26, T:0.40
Consensus pattern (12 bp):
ATGTTCGTGAAC
Found at i:19051461 original size:23 final size:23
Alignment explanation
Indices: 19051408--19051477 Score: 86
Period size: 23 Copynumber: 3.0 Consensus size: 23
19051398 TCATTAACAT
* * *
19051408 TGTTTGTGAACTTGTTCAATTATA
1 TGTTCGTGAACATGTTCGATTA-A
*
19051432 TGTTCGTGAACATGTTCGTTTAA
1 TGTTCGTGAACATGTTCGATTAA
*
19051455 TGTTCGTGAGCATGTTCGATTAA
1 TGTTCGTGAACATGTTCGATTAA
19051478 GTTAAATAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
23 22 0.55
24 18 0.45
ACGTcount: A:0.23, C:0.11, G:0.21, T:0.44
Consensus pattern (23 bp):
TGTTCGTGAACATGTTCGATTAA
Found at i:19054516 original size:163 final size:162
Alignment explanation
Indices: 19054332--19054670 Score: 543
Period size: 162 Copynumber: 2.1 Consensus size: 162
19054322 GGTTTTTAAT
* *
19054332 TTAGTCCTTTGACTGTTTGACTGCACCAGAGGCTGCCACGTGTCACTTTTTGGTTTATTTATGTA
1 TTAGTCCTTTGACTGTTTGACTGCACCAGAGGCTGCCACGTGTCACTTTTTGGCTTATTTATATA
* *
19054397 TTTAGTCCCTGTCATTTTTTAATTTGTTTTAATTTAATCCTCAAATCAACTTCTGCTTAATTACA
66 TCTAGTCCCTGTCA-TTTTTAATTTGTTTTAATTTAATCCTCAAATCAACTTCTACTTAATTACA
*
19054462 AAATTGACCCAAGAATTTCTCAATATTTATAAA
130 AAATTGACCCAAGAATTTCTCAAGATTTATAAA
19054495 TTAGTCCTTTGACTGTTTGACTGCACCAGAGGCTGCCACGTGTCACTTTTTGGCTTATTTATATA
1 TTAGTCCTTTGACTGTTTGACTGCACCAGAGGCTGCCACGTGTCACTTTTTGGCTTATTTATATA
* ** * *
19054560 TCTAGTCCCTGTCATTTTTAATTTGTTTTAATTTAATCTTTTAATCAACTTTTATTTAATTACAA
66 TCTAGTCCCTGTCATTTTTAATTTGTTTTAATTTAATCCTCAAATCAACTTCTACTTAATTACAA
* * *
19054625 AATTGGCCCAAGAATTTTTCGAGATTTATAAA
131 AATTGACCCAAGAATTTCTCAAGATTTATAAA
*
19054657 TTAGTCCCTTGACT
1 TTAGTCCTTTGACT
19054671 TCTGGGTACC
Statistics
Matches: 162, Mismatches: 14, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
162 86 0.53
163 76 0.47
ACGTcount: A:0.26, C:0.18, G:0.13, T:0.44
Consensus pattern (162 bp):
TTAGTCCTTTGACTGTTTGACTGCACCAGAGGCTGCCACGTGTCACTTTTTGGCTTATTTATATA
TCTAGTCCCTGTCATTTTTAATTTGTTTTAATTTAATCCTCAAATCAACTTCTACTTAATTACAA
AATTGACCCAAGAATTTCTCAAGATTTATAAA
Found at i:19054799 original size:40 final size:40
Alignment explanation
Indices: 19054755--19054837 Score: 157
Period size: 40 Copynumber: 2.1 Consensus size: 40
19054745 AAATTACCAT
19054755 TTTACCCCTTAACTTTCCAAAATTCCATTTTTAACCCCGA
1 TTTACCCCTTAACTTTCCAAAATTCCATTTTTAACCCCGA
*
19054795 TTTACCCCTTAACTTTTCAAAATTCCATTTTTAACCCCGA
1 TTTACCCCTTAACTTTCCAAAATTCCATTTTTAACCCCGA
19054835 TTT
1 TTT
19054838 CACCAAAAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.27, C:0.30, G:0.02, T:0.41
Consensus pattern (40 bp):
TTTACCCCTTAACTTTCCAAAATTCCATTTTTAACCCCGA
Found at i:19054827 original size:29 final size:29
Alignment explanation
Indices: 19054795--19055120 Score: 105
Period size: 30 Copynumber: 11.1 Consensus size: 29
19054785 TTAACCCCGA
*
19054795 TTTACCCCTTAACTTTTCAAAATTCCATT
1 TTTACCCCTTAACTTTCCAAAATTCCATT
*
19054824 TTTAACCCC--GA-TTTCACCAAAAATTACCA-T
1 TTT-ACCCCTTAACTTT--CC-AAAATT-CCATT
* *
19054854 TTTACCCCTAAACTCTCCAAAATTCCATT
1 TTTACCCCTTAACTTTCCAAAATTCCATT
* ** *
19054883 TTTA-ACCTCGATTTTACCAAAAATTACCA-T
1 TTTACCCCTTAACTTT-CC-AAAATT-CCATT
*
19054913 TTTA-CCCTTAAACTCTCCAAAATTCCATT
1 TTTACCCCTT-AACTTTCCAAAATTCCATT
* *
19054942 TTTAACCCC--GATTTTACCAAAAATTACCA-T
1 TTT-ACCCCTTAACTTT-CC-AAAATT-CCATT
* * *
19054972 TTTACCCC-GAACTTTCTAAAGTTCCATT
1 TTTACCCCTTAACTTTCCAAAATTCCATT
* * * *
19055000 TTTAACTCCGGTTTCAC---CAAAAATCACCA-T
1 TTT-AC-CC--CTTAACTTTCCAAAAT-TCCATT
* *
19055030 TTTACCCCTAAACTCTCCAAAATTCCA-T
1 TTTACCCCTTAACTTTCCAAAATTCCATT
* * *
19055058 TTTAACCC-TGATTTTACCAAATATTACCA-T
1 TTTACCCCTTAACTTT-CCAAA-ATT-CCATT
*
19055088 TTTA-CCCTCGAACTTTCCAAAATTCCATT
1 TTTACCCCT-TAACTTTCCAAAATTCCATT
19055117 TTTA
1 TTTA
19055121 ACCTCGGTTT
Statistics
Matches: 221, Mismatches: 40, Indels: 72
0.66 0.12 0.22
Matches are distributed among these distances:
26 3 0.01
27 9 0.04
28 46 0.21
29 64 0.29
30 72 0.33
31 23 0.10
32 2 0.01
33 2 0.01
ACGTcount: A:0.32, C:0.29, G:0.03, T:0.37
Consensus pattern (29 bp):
TTTACCCCTTAACTTTCCAAAATTCCATT
Found at i:19054875 original size:59 final size:59
Alignment explanation
Indices: 19054795--19055190 Score: 537
Period size: 59 Copynumber: 6.7 Consensus size: 59
19054785 TTAACCCCGA
* * *
19054795 TTTACCCCTTAACTTTTCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCAT
1 TTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTTACCAAAAATTACCAT
* *
19054854 TTTACCCCTAAACTCTCCAAAATTCCATTTTTAACCTCGATTTTACCAAAAATTACCAT
1 TTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTTACCAAAAATTACCAT
* *
19054913 TTTACCCTTAAACTCTCCAAAATTCCATTTTTAACCCCGATTTTACCAAAAATTACCAT
1 TTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTTACCAAAAATTACCAT
* * * * * * *
19054972 TTTACCCC-GAACTTTCTAAAGTTCCATTTTTAACTCCGGTTTCACCAAAAATCACCAT
1 TTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTTACCAAAAATTACCAT
* * *
19055030 TTTACCCCTAAACTCTCCAAAATTCCA-TTTTAACCCTGATTTTACCAAATATTACCAT
1 TTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTTACCAAAAATTACCAT
* * * *
19055088 TTTA-CCCTCGAACTTTCCAAAATTCCATTTTTAACCTCGGTTTTACTAAAAATTACCAT
1 TTTACCCCT-AAACTTTCCAAAATTCCATTTTTAACCCCGATTTTACCAAAAATTACCAT
* * *
19055147 TTTACCCCCTGAACTTTCCAAAATTCTATTTTTAGCCCCGATTT
1 TTTA-CCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTT
19055191 CACTAAAGTT
Statistics
Matches: 295, Mismatches: 37, Indels: 9
0.87 0.11 0.03
Matches are distributed among these distances:
57 4 0.01
58 95 0.32
59 162 0.55
60 30 0.10
61 4 0.01
ACGTcount: A:0.31, C:0.29, G:0.04, T:0.37
Consensus pattern (59 bp):
TTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTTACCAAAAATTACCAT
Found at i:19055052 original size:117 final size:117
Alignment explanation
Indices: 19054795--19055190 Score: 571
Period size: 117 Copynumber: 3.4 Consensus size: 117
19054785 TTAACCCCGA
* * * *
19054795 TTTACCCCTTAACTTTTCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACC
1 TTTACCCCTAAACTCTCCAAAATTCCATTTTTAACCCCGATTTTACCAAAAATTACCATTTTACC
* * *
19054860 CCTAAACTCTCCAAAATTCCATTTTTAACCTCGATTTTACCAAAAATTACCAT
66 CC-GAACTTTCCAAAATTCCATTTTTAACCTCGGTTTTACCAAAAATTACCAT
*
19054913 TTTACCCTTAAACTCTCCAAAATTCCATTTTTAACCCCGATTTTACCAAAAATTACCATTTTACC
1 TTTACCCCTAAACTCTCCAAAATTCCATTTTTAACCCCGATTTTACCAAAAATTACCATTTTACC
* * * *
19054978 CCGAACTTTCTAAAGTTCCATTTTTAA-CTCCGGTTTCACCAAAAATCACCAT
66 CCGAACTTTCCAAAATTCCATTTTTAACCT-CGGTTTTACCAAAAATTACCAT
* *
19055030 TTTACCCCTAAACTCTCCAAAATTCCA-TTTTAACCCTGATTTTACCAAATATTACCATTTTACC
1 TTTACCCCTAAACTCTCCAAAATTCCATTTTTAACCCCGATTTTACCAAAAATTACCATTTTACC
*
19055094 CTCGAACTTTCCAAAATTCCATTTTTAACCTCGGTTTTACTAAAAATTACCAT
66 C-CGAACTTTCCAAAATTCCATTTTTAACCTCGGTTTTACCAAAAATTACCAT
* * * *
19055147 TTTACCCCCTGAACTTTCCAAAATTCTATTTTTAGCCCCGATTT
1 TTTA-CCCCTAAACTCTCCAAAATTCCATTTTTAACCCCGATTT
19055191 CACTAAAGTT
Statistics
Matches: 248, Mismatches: 25, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
116 38 0.15
117 113 0.46
118 84 0.34
119 13 0.05
ACGTcount: A:0.31, C:0.29, G:0.04, T:0.37
Consensus pattern (117 bp):
TTTACCCCTAAACTCTCCAAAATTCCATTTTTAACCCCGATTTTACCAAAAATTACCATTTTACC
CCGAACTTTCCAAAATTCCATTTTTAACCTCGGTTTTACCAAAAATTACCAT
Found at i:19055290 original size:28 final size:27
Alignment explanation
Indices: 19055234--19055293 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 27
19055224 AATTTCACCA
*
19055234 AAAATTACCATTTTGCCCCTGTACGTCC
1 AAAATTACCATTTTGCCCCGGTAC-TCC
19055262 AAAATTACCATTTTGCCCTCGGGTA-TCC
1 AAAATTACCATTTTGCCC-C-GGTACTCC
19055290 AAAA
1 AAAA
19055294 GTCCTGTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
28 25 0.86
29 1 0.03
30 3 0.10
ACGTcount: A:0.30, C:0.28, G:0.12, T:0.30
Consensus pattern (27 bp):
AAAATTACCATTTTGCCCCGGTACTCC
Found at i:19057940 original size:42 final size:42
Alignment explanation
Indices: 19057894--19058114 Score: 167
Period size: 43 Copynumber: 5.0 Consensus size: 42
19057884 ACGTTGCTAT
* *
19057894 AGAACATGGTCTTTAGTGGCGCTTTT-CATTAAACGCCACTAA
1 AGAACATGGTCTTTAGTGACGCTTTTCCA-CAAACGCCACTAA
* * *
19057936 AGAACATGGTCTTTAGCGACGCTTTTTCCACAAATGCCGCTAA
1 AGAACATGGTCTTTAGTGACGC-TTTTCCACAAACGCCACTAA
*
19057979 AGAACATGGTCTTTAGTGACGCTTTCCCCACAAACGCCGTTACCGCTAA
1 AGAACATGGTCTTTAGTGACGCTTT-TCCACAAACGCC---A---CTAA
* * * * *
19058028 AGATCATGGTTTTTAGTGGCGCTTTCCCCACAAAC-CTCACGAA
1 AGAACATGGTCTTTAGTGACGCTTT-TCCACAAACGC-CACTAA
* * * * * *
19058071 AGAGCATGGTCTTTAGCGGCGCTTTCCCCACAAACACCTCTAA
1 AGAACATGGTCTTTAGTGACGCTTT-TCCACAAACGCCACTAA
19058114 A
1 A
19058115 ATTAATAGAT
Statistics
Matches: 150, Mismatches: 18, Indels: 21
0.79 0.10 0.11
Matches are distributed among these distances:
42 23 0.15
43 85 0.57
44 3 0.02
46 1 0.01
48 1 0.01
49 37 0.25
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.27
Consensus pattern (42 bp):
AGAACATGGTCTTTAGTGACGCTTTTCCACAAACGCCACTAA
Found at i:19058240 original size:2 final size:2
Alignment explanation
Indices: 19058233--19058266 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
19058223 CACGAAAGAA
19058233 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
19058267 GATTTAAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19060249 original size:19 final size:19
Alignment explanation
Indices: 19060212--19060251 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
19060202 TTGATATTTG
* *
19060212 TAAATATTGTTATATATAT
1 TAAATATTGTTAAAAATAT
*
19060231 TAAATATTTTTAAAAATAT
1 TAAATATTGTTAAAAATAT
19060250 TA
1 TA
19060252 TATTCAAAAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (19 bp):
TAAATATTGTTAAAAATAT
Found at i:19061652 original size:41 final size:41
Alignment explanation
Indices: 19061593--19061695 Score: 134
Period size: 41 Copynumber: 2.5 Consensus size: 41
19061583 TATAGATTAA
* * * *
19061593 CTAATGTTCTGACCTTTAGAGGCGCTTCCTCATAAGCGTCG
1 CTAATGCTCTCACCTTTAGAGACGCTTCCTCATAAGCGCCG
* * *
19061634 TTAATGCTCTCACTTTTAGCGACGCTTCCTCATAAGCGCCG
1 CTAATGCTCTCACCTTTAGAGACGCTTCCTCATAAGCGCCG
*
19061675 CTAATGCTCTGACCTTTAGAG
1 CTAATGCTCTCACCTTTAGAG
19061696 CGCCGCTAAT
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.20, C:0.28, G:0.19, T:0.32
Consensus pattern (41 bp):
CTAATGCTCTCACCTTTAGAGACGCTTCCTCATAAGCGCCG
Found at i:19061704 original size:26 final size:26
Alignment explanation
Indices: 19061668--19061719 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
19061658 CTTCCTCATA
19061668 AGCGCCGCTAATGCTCTGACCTTTAG
1 AGCGCCGCTAATGCTCTGACCTTTAG
19061694 AGCGCCGCTAATGCTCTGACCTTTAG
1 AGCGCCGCTAATGCTCTGACCTTTAG
19061720 CGACGCTTCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.19, C:0.31, G:0.23, T:0.27
Consensus pattern (26 bp):
AGCGCCGCTAATGCTCTGACCTTTAG
Found at i:19061726 original size:24 final size:25
Alignment explanation
Indices: 19061666--19061726 Score: 97
Period size: 26 Copynumber: 2.4 Consensus size: 25
19061656 CGCTTCCTCA
19061666 TAAGCGCCGCTAATGCTCTGACCTT
1 TAAGCGCCGCTAATGCTCTGACCTT
19061691 TAGAGCGCCGCTAATGCTCTGACCTT
1 TA-AGCGCCGCTAATGCTCTGACCTT
*
19061717 T-AGCGACGCT
1 TAAGCGCCGCT
19061727 TCCTCATCAG
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
24 8 0.24
25 2 0.06
26 24 0.71
ACGTcount: A:0.20, C:0.31, G:0.23, T:0.26
Consensus pattern (25 bp):
TAAGCGCCGCTAATGCTCTGACCTT
Found at i:19061747 original size:67 final size:67
Alignment explanation
Indices: 19061635--19061760 Score: 198
Period size: 67 Copynumber: 1.9 Consensus size: 67
19061625 TAAGCGTCGT
* *
19061635 TAATGCTCTCACTTTTAGCGACGCTTCCTCATAAGCGCCGCTAATGCTCTGACCTTTAGAGCGCC
1 TAATGCTCTCACCTTTAGCGACGCTTCCTCATAAGCGCCACTAATGCTCTGACCTTTAGAGCGCC
19061700 GC
66 GC
* * * *
19061702 TAATGCTCTGACCTTTAGCGACGCTTCCTCATCAGCGTCATTAATGCTCTGACCTTTAG
1 TAATGCTCTCACCTTTAGCGACGCTTCCTCATAAGCGCCACTAATGCTCTGACCTTTAG
19061761 CGGCGCTTCC
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
67 53 1.00
ACGTcount: A:0.20, C:0.31, G:0.18, T:0.31
Consensus pattern (67 bp):
TAATGCTCTCACCTTTAGCGACGCTTCCTCATAAGCGCCACTAATGCTCTGACCTTTAGAGCGCC
GC
Found at i:19061784 original size:108 final size:108
Alignment explanation
Indices: 19061593--19061801 Score: 321
Period size: 108 Copynumber: 1.9 Consensus size: 108
19061583 TATAGATTAA
* * * *
19061593 CTAATGTTCTGACCTTTAGAGGCGCTTCCTCATAAGCGTCGTTAATGCTCTCACTTTTAGCGACG
1 CTAATGCTCTGACCTTTAGAGACGCTTCCTCATAAGCGTCATTAATGCTCTCACCTTTAGCGACG
19061658 CTTCCTCATAAGCGCCGCTAATGCTCTGACCTTTAGAGCGCCG
66 CTTCCTCATAAGCGCCGCTAATGCTCTGACCTTTAGAGCGCCG
* * * *
19061701 CTAATGCTCTGACCTTTAGCGACGCTTCCTCATCAGCGTCATTAATGCTCTGACCTTTAGCGGCG
1 CTAATGCTCTGACCTTTAGAGACGCTTCCTCATAAGCGTCATTAATGCTCTCACCTTTAGCGACG
*
19061766 CTTCCTCATGAGTC-CCGCTAATGCTCTGACCTTTAG
66 CTTCCTCATAAG-CGCCGCTAATGCTCTGACCTTTAG
19061802 CGGCATTTCC
Statistics
Matches: 91, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
108 90 0.99
109 1 0.01
ACGTcount: A:0.19, C:0.31, G:0.20, T:0.31
Consensus pattern (108 bp):
CTAATGCTCTGACCTTTAGAGACGCTTCCTCATAAGCGTCATTAATGCTCTCACCTTTAGCGACG
CTTCCTCATAAGCGCCGCTAATGCTCTGACCTTTAGAGCGCCG
Found at i:19061804 original size:41 final size:41
Alignment explanation
Indices: 19061698--19061843 Score: 168
Period size: 41 Copynumber: 3.6 Consensus size: 41
19061688 CTTTAGAGCG
* *
19061698 CCGCTAATGCTCTGACCTTTAGCGACGCTTCCTCATCAG-C
1 CCGCTAATGCTCTGACCTTTAGCGGCGCTTCCTCATAAGTC
* ** *
19061738 GTCATTAATGCTCTGACCTTTAGCGGCGCTTCCTCATGAGTC
1 -CCGCTAATGCTCTGACCTTTAGCGGCGCTTCCTCATAAGTC
** * *
19061780 CCGCTAATGCTCTGACCTTTAGCGGCATTTCCTCATAAATG
1 CCGCTAATGCTCTGACCTTTAGCGGCGCTTCCTCATAAGTC
* *
19061821 TCGCTAATGCTCTAACCTTTAGC
1 CCGCTAATGCTCTGACCTTTAGC
19061844 AGCGTTTTTC
Statistics
Matches: 89, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
41 88 0.99
42 1 0.01
ACGTcount: A:0.19, C:0.32, G:0.18, T:0.32
Consensus pattern (41 bp):
CCGCTAATGCTCTGACCTTTAGCGGCGCTTCCTCATAAGTC
Found at i:19062485 original size:57 final size:57
Alignment explanation
Indices: 19062397--19062506 Score: 220
Period size: 57 Copynumber: 1.9 Consensus size: 57
19062387 AAAGAAATCA
19062397 TACCTCTCCTTCAAAGAAACCGCACCCCATTTGGTTCCTCAAAACCTTTTATTATCG
1 TACCTCTCCTTCAAAGAAACCGCACCCCATTTGGTTCCTCAAAACCTTTTATTATCG
19062454 TACCTCTCCTTCAAAGAAACCGCACCCCATTTGGTTCCTCAAAACCTTTTATT
1 TACCTCTCCTTCAAAGAAACCGCACCCCATTTGGTTCCTCAAAACCTTTTATT
19062507 TCTCTAGTAC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 53 1.00
ACGTcount: A:0.26, C:0.34, G:0.08, T:0.32
Consensus pattern (57 bp):
TACCTCTCCTTCAAAGAAACCGCACCCCATTTGGTTCCTCAAAACCTTTTATTATCG
Found at i:19062683 original size:32 final size:32
Alignment explanation
Indices: 19062642--19062702 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
19062632 TAAAGGCTTA
19062642 TAAAAGCAATTAATGTTAAAAACTCCAACCTG
1 TAAAAGCAATTAATGTTAAAAACTCCAACCTG
*
19062674 TAAAAGCAATTAATGTTAGAAACTCCAAC
1 TAAAAGCAATTAATGTTAAAAACTCCAAC
19062703 GACTCCAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.48, C:0.18, G:0.10, T:0.25
Consensus pattern (32 bp):
TAAAAGCAATTAATGTTAAAAACTCCAACCTG
Found at i:19067449 original size:15 final size:16
Alignment explanation
Indices: 19067429--19067458 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19067419 AAATATAGTA
19067429 AAATA-TTAAAAAAAT
1 AAATATTTAAAAAAAT
19067444 AAATATTTAAAAAAA
1 AAATATTTAAAAAAA
19067459 ATCATATCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (16 bp):
AAATATTTAAAAAAAT
Found at i:19080271 original size:30 final size:30
Alignment explanation
Indices: 19080237--19080296 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
19080227 CACGGTTTGG
*
19080237 CACATGG-TCGTGTGCCTAGCCTGTGTGGCT
1 CACATGGCT-GTGTGCCCAGCCTGTGTGGCT
*
19080267 CACATGGCTGTGTGCCCAGTCTGTGTGGCT
1 CACATGGCTGTGTGCCCAGCCTGTGTGGCT
19080297 TCTAAAATCT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.10, C:0.27, G:0.33, T:0.30
Consensus pattern (30 bp):
CACATGGCTGTGTGCCCAGCCTGTGTGGCT
Found at i:19084641 original size:52 final size:52
Alignment explanation
Indices: 19084476--19084672 Score: 256
Period size: 52 Copynumber: 3.8 Consensus size: 52
19084466 ATTTCGCTTC
* * *
19084476 ATTCATATACTCACGATGACAAATAGCCACCGGACCT-TATAAT-C-TACAAGGG
1 ATTCATATACTCACGATGACACATAGTCATCGGACCTCT-TAATCCGTA-AA-GG
* *
19084528 ATTCATATACTCACGATGACACAGAATCATCGGATCCTCTTAATCCGTAAAGG
1 ATTCATATACTCACGATGACACATAGTCATCGGA-CCTCTTAATCCGTAAAGG
* *
19084581 ATTCATATACTCACGATGACACTTAGTCATCAGACCTCTTAATCCGTAAAGG
1 ATTCATATACTCACGATGACACATAGTCATCGGACCTCTTAATCCGTAAAGG
* *
19084633 ATTCATATACTCACGATGACACTTAGTCATTGGACCTCTT
1 ATTCATATACTCACGATGACACATAGTCATCGGACCTCTT
19084673 CGTTTATGGC
Statistics
Matches: 130, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
52 85 0.65
53 39 0.30
54 4 0.03
55 2 0.02
ACGTcount: A:0.33, C:0.25, G:0.14, T:0.28
Consensus pattern (52 bp):
ATTCATATACTCACGATGACACATAGTCATCGGACCTCTTAATCCGTAAAGG
Found at i:19085578 original size:24 final size:20
Alignment explanation
Indices: 19085526--19085566 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
19085516 GCTTTTATAA
19085526 TTAACC-TAATTAATCCACT
1 TTAACCTTAATTAATCCACT
19085545 TTAACCTTAATTAATCTCACT
1 TTAACCTTAATTAATC-CACT
19085566 T
1 T
19085567 ATAAGCACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 6 0.30
20 9 0.45
21 5 0.25
ACGTcount: A:0.34, C:0.24, G:0.00, T:0.41
Consensus pattern (20 bp):
TTAACCTTAATTAATCCACT
Found at i:19087379 original size:28 final size:29
Alignment explanation
Indices: 19087330--19087397 Score: 86
Period size: 28 Copynumber: 2.4 Consensus size: 29
19087320 TTGGAATAGG
* *
19087330 AAATTTCATTACGATATCTTAGGTTAATT
1 AAATTTAATTAGGATATCTTAGGTTAATT
* *
19087359 AAATTT-ATTAGGTTATTTTAGGTTAATT
1 AAATTTAATTAGGATATCTTAGGTTAATT
19087387 -AATTTAATTAG
1 AAATTTAATTAG
19087398 ATTAATTAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
27 5 0.14
28 24 0.69
29 6 0.17
ACGTcount: A:0.35, C:0.04, G:0.12, T:0.49
Consensus pattern (29 bp):
AAATTTAATTAGGATATCTTAGGTTAATT
Found at i:19093721 original size:37 final size:37
Alignment explanation
Indices: 19093670--19093741 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
19093660 TTGTTTCATT
* *
19093670 AATTTGGTCTACTTCTCTGTATCTCATCAGGAAGACG
1 AATTTGGTCCACTTCTCTGTATCTCATCAAGAAGACG
*
19093707 AATTTGGTCCACTTCTCTGTATTTCATCAAGAAGA
1 AATTTGGTCCACTTCTCTGTATCTCATCAAGAAGA
19093742 TGACCGTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (37 bp):
AATTTGGTCCACTTCTCTGTATCTCATCAAGAAGACG
Found at i:19093723 original size:160 final size:160
Alignment explanation
Indices: 19093557--19093864 Score: 483
Period size: 160 Copynumber: 1.9 Consensus size: 160
19093547 GATTTGGCAT
* *
19093557 ACTTCTCTGTATCTCATCAAAAAGGTGACCATTTTATTGCTTCGA-CCTGCTTCTCAGTATCTCA
1 ACTTCTCTGTATCTCATCAAAAAGATGACCATTTTATTACTTCGACCCT-CTTCTCAGTATCTCA
* *
19093621 TCAAGAAGCTGAGGTTCGAAGTTTCGCTCACATTGAGCTTTGTTTCATTAATTTGGTCTACTTCT
65 TCAAGAAGCTGAGGTTCGAAGTTTCGCTCACATTGAGCTTTGTTTCATTAATTTGATATACTTCT
*
19093686 CTGTATCTCATCAGGAAGACGAATTTGGTCC
130 CTGTATCTCATCAGAAAGACGAATTTGGTCC
* * *
19093717 ACTTCTCTGTATTTCATCAAGAAGATGACCGTTTTATTACTTCGACCCTCTTCTCAGTATCTCAT
1 ACTTCTCTGTATCTCATCAAAAAGATGACCATTTTATTACTTCGACCCTCTTCTCAGTATCTCAT
* ** * *
19093782 CAAGAAGCTGAGGTTCGAAGTTTTGCTCGTATTGAGCTTTGTTTCATTGATTTGATATACTTCTT
66 CAAGAAGCTGAGGTTCGAAGTTTCGCTCACATTGAGCTTTGTTTCATTAATTTGATATACTTCTC
19093847 TGTATCTCATCAGAAAGA
131 TGTATCTCATCAGAAAGA
19093865 TGACCGCATC
Statistics
Matches: 134, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
160 131 0.98
161 3 0.02
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.38
Consensus pattern (160 bp):
ACTTCTCTGTATCTCATCAAAAAGATGACCATTTTATTACTTCGACCCTCTTCTCAGTATCTCAT
CAAGAAGCTGAGGTTCGAAGTTTCGCTCACATTGAGCTTTGTTTCATTAATTTGATATACTTCTC
TGTATCTCATCAGAAAGACGAATTTGGTCC
Found at i:19097871 original size:23 final size:23
Alignment explanation
Indices: 19097845--19098064 Score: 235
Period size: 23 Copynumber: 9.5 Consensus size: 23
19097835 AAGTGCTGGG
* *
19097845 AAACAGAGAGCATACACAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* *
19097868 AAACAGAGAGTACACAAAGTACT
1 AAACAGAGAGCACACAAAGTGCT
* * *
19097891 AATCAGAGAGTACACAAAGTACT
1 AAACAGAGAGCACACAAAGTGCT
*
19097914 AATCAGAGAGCACACAAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* *
19097937 AATCAGAGAGCACACACAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* *
19097960 AAACAGAGAGTACACAAAGTACT
1 AAACAGAGAGCACACAAAGTGCT
* * *
19097983 AATCAGGGAGTACACAAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* *
19098006 AATCAGAGAGCACACACAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* *
19098029 AATAACAGAGAGCACGA-GACGTGCT
1 -A-AACAGAGAGCAC-ACAAAGTGCT
19098054 AAACAGAGAGC
1 AAACAGAGAGC
19098065 GCGTTAGTGT
Statistics
Matches: 172, Mismatches: 22, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
23 153 0.89
24 2 0.01
25 16 0.09
26 1 0.01
ACGTcount: A:0.45, C:0.20, G:0.22, T:0.13
Consensus pattern (23 bp):
AAACAGAGAGCACACAAAGTGCT
Found at i:19097898 original size:46 final size:46
Alignment explanation
Indices: 19097848--19098064 Score: 265
Period size: 46 Copynumber: 4.7 Consensus size: 46
19097838 TGCTGGGAAA
* *
19097848 CAGAGAGCATACACAGTGCTAAACAGAGAGTACACAAAGTACTAAT
1 CAGAGAGCACACACAGTGCTAAACAGAGAGCACACAAAGTACTAAT
* * * * *
19097894 CAGAGAGTACACAAAGTACTAATCAGAGAGCACACAAAGTGCTAAT
1 CAGAGAGCACACACAGTGCTAAACAGAGAGCACACAAAGTACTAAT
*
19097940 CAGAGAGCACACACAGTGCTAAACAGAGAGTACACAAAGTACTAAT
1 CAGAGAGCACACACAGTGCTAAACAGAGAGCACACAAAGTACTAAT
* * * * * *
19097986 CAGGGAGTACACAAAGTGCTAATCAGAGAGCACACACAGTGCTAAT
1 CAGAGAGCACACACAGTGCTAAACAGAGAGCACACAAAGTACTAAT
*
19098032 AACAGAGAGCACGAGAC-GTGCTAAACAGAGAGC
1 --CAGAGAGCAC-ACACAGTGCTAAACAGAGAGC
19098065 GCGTTAGTGT
Statistics
Matches: 143, Mismatches: 25, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
46 118 0.83
48 23 0.16
49 2 0.01
ACGTcount: A:0.44, C:0.21, G:0.22, T:0.13
Consensus pattern (46 bp):
CAGAGAGCACACACAGTGCTAAACAGAGAGCACACAAAGTACTAAT
Found at i:19097921 original size:69 final size:69
Alignment explanation
Indices: 19097848--19098040 Score: 287
Period size: 69 Copynumber: 2.8 Consensus size: 69
19097838 TGCTGGGAAA
* * * * * *
19097848 CAGAGAGCATACACAGTGCTAAACAGAGAGTACACAAAGTACTAATCAGAGAGTACACAAAGTAC
1 CAGAGAGCACACAAAGTGCTAATCAGAGAGCACACACAGTGCTAATCAGAGAGTACACAAAGTAC
19097913 TAAT
66 TAAT
*
19097917 CAGAGAGCACACAAAGTGCTAATCAGAGAGCACACACAGTGCTAAACAGAGAGTACACAAAGTAC
1 CAGAGAGCACACAAAGTGCTAATCAGAGAGCACACACAGTGCTAATCAGAGAGTACACAAAGTAC
19097982 TAAT
66 TAAT
* *
19097986 CAGGGAGTACACAAAGTGCTAATCAGAGAGCACACACAGTGCTAATAACAGAGAG
1 CAGAGAGCACACAAAGTGCTAATCAGAGAGCACACACAGTGCTAAT--CAGAGAG
19098041 CACGAGACGT
Statistics
Matches: 112, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
69 105 0.94
71 7 0.06
ACGTcount: A:0.45, C:0.20, G:0.21, T:0.14
Consensus pattern (69 bp):
CAGAGAGCACACAAAGTGCTAATCAGAGAGCACACACAGTGCTAATCAGAGAGTACACAAAGTAC
TAAT
Found at i:19106254 original size:16 final size:16
Alignment explanation
Indices: 19106233--19106267 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
19106223 ATAACACAAA
*
19106233 GAATGAACAATTATAC
1 GAATGAACAAGTATAC
*
19106249 GAATGAATAAGTATAC
1 GAATGAACAAGTATAC
19106265 GAA
1 GAA
19106268 ACTAAATATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.51, C:0.09, G:0.17, T:0.23
Consensus pattern (16 bp):
GAATGAACAAGTATAC
Found at i:19106697 original size:28 final size:28
Alignment explanation
Indices: 19106397--19106701 Score: 276
Period size: 29 Copynumber: 10.7 Consensus size: 28
19106387 AAGAGGGTCG
* * *
19106397 AAAATG-AAGTTTTGGAGAGTTCGGGGTT
1 AAAATGTAA-TTTTTGAAAGTTCGGGGTA
* * **
19106425 AAAATGTAATTTTAGAAAATTTAAGGGTA
1 AAAATGTAATTTTTG-AAAGTTCGGGGTA
* * * *
19106454 AAAATGTAATTTTAGGAAAATTCAGGATA
1 AAAATGTAATTTT-TGAAAGTTCGGGGTA
* *
19106483 AAAATGTGATTTTTGAGAAGTTCGGGGCA
1 AAAATGTAATTTTTGA-AAGTTCGGGGTA
* * *
19106512 AAAAAGTAATTTTGGGAAAGTTCGAGGTA
1 AAAATGTAATTTT-TGAAAGTTCGGGGTA
*
19106541 AAAATGTAAATTTTGAGAAGTTCGAGGGTA
1 AAAATGTAATTTTTGA-AAGTTCG-GGGTA
*
19106571 AAAATGTGATTTTTGAAAGTTCGAGGG-A
1 AAAATGTAATTTTTGAAAGTTCG-GGGTA
**
19106599 AAAATGTAATTTTTGAGAAGTTTAGGGTA
1 AAAATGTAATTTTTGA-AAGTTCGGGGTA
* *
19106628 AAAATGTGATTTTTGGAAGTTCGAGGG-A
1 AAAATGTAATTTTTGAAAGTTCG-GGGTA
* *
19106656 AAAATATAATTTTTGAAAGTTCGGGGTC
1 AAAATGTAATTTTTGAAAGTTCGGGGTA
19106684 AAAATGTAATTTTT-AAAG
1 AAAATGTAATTTTTGAAAG
19106702 AAAATAGGGG
Statistics
Matches: 227, Mismatches: 39, Indels: 23
0.79 0.13 0.08
Matches are distributed among these distances:
27 7 0.03
28 73 0.32
29 126 0.56
30 21 0.09
ACGTcount: A:0.39, C:0.03, G:0.25, T:0.33
Consensus pattern (28 bp):
AAAATGTAATTTTTGAAAGTTCGGGGTA
Found at i:19107767 original size:13 final size:12
Alignment explanation
Indices: 19107751--19107788 Score: 51
Period size: 13 Copynumber: 3.2 Consensus size: 12
19107741 TTTTCCTTTT
19107751 TATTATTTAATAA
1 TATTATTTAAT-A
19107764 TATTATTTAATA
1 TATTATTTAATA
*
19107776 T-TTATTTATTA
1 TATTATTTAATA
19107787 TA
1 TA
19107789 CTTAATATAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
11 10 0.43
12 2 0.09
13 11 0.48
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (12 bp):
TATTATTTAATA
Found at i:19108604 original size:17 final size:17
Alignment explanation
Indices: 19108565--19108618 Score: 58
Period size: 15 Copynumber: 3.2 Consensus size: 17
19108555 TCACGTCAAT
* *
19108565 AAATAATTTAAAGTTATAG
1 AAAT-ATTTAAA-ATATAA
19108584 AAATATTTAAAATATAA
1 AAATATTTAAAATATAA
19108601 AAATA--TAAAATATAA
1 AAATATTTAAAATATAA
19108616 AAA
1 AAA
19108619 GTTCATGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
15 13 0.39
17 9 0.27
18 7 0.21
19 4 0.12
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (17 bp):
AAATATTTAAAATATAA
Found at i:19109853 original size:6 final size:6
Alignment explanation
Indices: 19109842--19109883 Score: 57
Period size: 6 Copynumber: 6.7 Consensus size: 6
19109832 GAAGCCTCTT
*
19109842 CCCTTC CCCTTC CCTTTC CCCTTTC CCCTTCC CCCTTC CCCT
1 CCCTTC CCCTTC CCCTTC CCC-TTC CCCTT-C CCCTTC CCCT
19109884 ATCATTGCCA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 20 0.62
7 12 0.38
ACGTcount: A:0.00, C:0.64, G:0.00, T:0.36
Consensus pattern (6 bp):
CCCTTC
Found at i:19109873 original size:13 final size:12
Alignment explanation
Indices: 19109842--19109883 Score: 57
Period size: 13 Copynumber: 3.3 Consensus size: 12
19109832 GAAGCCTCTT
19109842 CCCTTCCCCTTC
1 CCCTTCCCCTTC
*
19109854 CCTTTCCCCTTTC
1 CCCTTCCCC-TTC
19109867 CCCTTCCCCCTTC
1 CCCTT-CCCCTTC
19109880 CCCT
1 CCCT
19109884 ATCATTGCCA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 8 0.31
13 14 0.54
14 4 0.15
ACGTcount: A:0.00, C:0.64, G:0.00, T:0.36
Consensus pattern (12 bp):
CCCTTCCCCTTC
Found at i:19113167 original size:12 final size:12
Alignment explanation
Indices: 19113150--19113174 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
19113140 TATACTTTAC
19113150 GTAATATTTGTA
1 GTAATATTTGTA
19113162 GTAATATTTGTA
1 GTAATATTTGTA
19113174 G
1 G
19113175 ATTGATTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.20, T:0.48
Consensus pattern (12 bp):
GTAATATTTGTA
Found at i:19114095 original size:6 final size:6
Alignment explanation
Indices: 19114080--19114172 Score: 68
Period size: 6 Copynumber: 15.8 Consensus size: 6
19114070 TTTAAATTAC
* * ** *
19114080 TTTAAG TTTAAA TTT-AT TTTAAA TTTTAAA -TTATT TTTAAA ATTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA -TTTAAA TTTAAA TTTAAA TTTAAA
* * *
19114127 TTT-AT TTTAAA TTTAAA TTT-AT TTTGAA TTTAAA TTTAAAA TTTAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTT-AAA TTTAA
19114173 TTAAAAGTCC
Statistics
Matches: 67, Mismatches: 14, Indels: 12
0.72 0.15 0.13
Matches are distributed among these distances:
5 15 0.22
6 40 0.60
7 12 0.18
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (6 bp):
TTTAAA
Found at i:19114113 original size:17 final size:17
Alignment explanation
Indices: 19114070--19114164 Score: 122
Period size: 17 Copynumber: 5.6 Consensus size: 17
19114060 TGAACCCAAT
* *
19114070 TTTAAA-TTACTTTAAG
1 TTTAAATTTATTTTAAA
19114086 TTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
19114103 TTTTAAA-TTATTTTTAAA
1 -TTTAAATTTA-TTTTAAA
*
19114121 ATTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
*
19114138 TTTAAATTTATTTTGAA
1 TTTAAATTTATTTTAAA
19114155 TTTAAATTTA
1 TTTAAATTTA
19114165 AAATTTAATT
Statistics
Matches: 70, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
16 6 0.09
17 48 0.69
18 16 0.23
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.57
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:19114141 original size:23 final size:24
Alignment explanation
Indices: 19114115--19114174 Score: 79
Period size: 23 Copynumber: 2.6 Consensus size: 24
19114105 TTAAATTATT
* *
19114115 TTTAAAATTAAATTT-ATTTTAAA
1 TTTAAAATTTAATTTGAATTTAAA
*
19114138 TTT-AAATTTATTTTGAATTTAAA
1 TTTAAAATTTAATTTGAATTTAAA
19114161 TTTAAAATTTAATT
1 TTTAAAATTTAATT
19114175 AAAAGTCCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
22 9 0.29
23 13 0.42
24 9 0.29
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (24 bp):
TTTAAAATTTAATTTGAATTTAAA
Found at i:19114735 original size:24 final size:25
Alignment explanation
Indices: 19114708--19114754 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
19114698 TCAAAGATTG
* *
19114708 TTTATTATTTTTTTAATA-CATTAA
1 TTTATTATATTATTAATATCATTAA
19114732 TTTATTATATTATTAATATCATT
1 TTTATTATATTATTAATATCATT
19114755 CATTGCTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (25 bp):
TTTATTATATTATTAATATCATTAA
Found at i:19115712 original size:30 final size:30
Alignment explanation
Indices: 19115659--19115785 Score: 131
Period size: 29 Copynumber: 4.4 Consensus size: 30
19115649 CCCAAAAGGC
* *
19115659 CCCTAAACTT-TTTAAAATCATA-TTTTGA
1 CCCTAAACTTCTTAAAAATTATATTTTTGA
19115687 CCCTCAAACTTCTTAAAAATTATATTTTTG-
1 CCCT-AAACTTCTTAAAAATTATATTTTTGA
*
19115717 CCCTCGAACTTC-TAAAAATTATATTTTTGA
1 CCCT-AAACTTCTTAAAAATTATATTTTTGA
* * * *
19115747 CCCTAAACTTC-CAAAAATCACATTTTTAA
1 CCCTAAACTTCTTAAAAATTATATTTTTGA
19115776 CCC-AAACTTC
1 CCCTAAACTTC
19115786 CCAAAATGAC
Statistics
Matches: 87, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
28 11 0.13
29 46 0.53
30 25 0.29
31 5 0.06
ACGTcount: A:0.35, C:0.24, G:0.03, T:0.38
Consensus pattern (30 bp):
CCCTAAACTTCTTAAAAATTATATTTTTGA
Found at i:19115789 original size:29 final size:29
Alignment explanation
Indices: 19115723--19115820 Score: 117
Period size: 28 Copynumber: 3.4 Consensus size: 29
19115713 TTTGCCCTCG
* * * *
19115723 AACTTCTAAAAATTATATTTTTGACCCTA
1 AACTTCCAAAAATCACATTTTTAACCCTA
19115752 AACTTCCAAAAATCACATTTTTAACCC-A
1 AACTTCCAAAAATCACATTTTTAACCCTA
* * *
19115780 AACTTCCCAAAATGACATTTTTATCCCTAA
1 AACTTCCAAAAATCACATTTTTAACCCT-A
19115810 AACTTCCAAAA
1 AACTTCCAAAA
19115821 TTATGTTTTT
Statistics
Matches: 59, Mismatches: 8, Indels: 3
0.84 0.11 0.04
Matches are distributed among these distances:
28 25 0.42
29 23 0.39
30 11 0.19
ACGTcount: A:0.41, C:0.24, G:0.02, T:0.33
Consensus pattern (29 bp):
AACTTCCAAAAATCACATTTTTAACCCTA
Found at i:19115814 original size:58 final size:56
Alignment explanation
Indices: 19115739--19115899 Score: 173
Period size: 58 Copynumber: 2.8 Consensus size: 56
19115729 TAAAAATTAT
*
19115739 ATTTTTGACCCT-AAACTTCCAAAAATCACATTTTTAACCCAAACTTCCCAAAATGAC
1 ATTTTT-ACCCTAAAACTTCC-AAAATTACATTTTTAACCCAAACTTCCCAAAATGAC
** * * *
19115796 ATTTTTATCCCTAAAACTTCCAAAATTATGTTTTTACCCCGAACTTTCCTAAAATGAC
1 ATTTTTA-CCCTAAAACTTCCAAAATTACATTTTTAACCCAAAC-TTCCCAAAATGAC
* *
19115854 ATTCTTACCCCTAAAAATTTCCAAAATTACA-TTTTAACCCCAAACT
1 ATTTTTA-CCCT-AAAACTTCCAAAATTACATTTTTAA-CCCAAACT
19115900 CTTCAAATTT
Statistics
Matches: 86, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
56 1 0.01
57 28 0.33
58 36 0.42
59 21 0.24
ACGTcount: A:0.37, C:0.27, G:0.03, T:0.34
Consensus pattern (56 bp):
ATTTTTACCCTAAAACTTCCAAAATTACATTTTTAACCCAAACTTCCCAAAATGAC
Found at i:19115821 original size:29 final size:27
Alignment explanation
Indices: 19115739--19115899 Score: 117
Period size: 29 Copynumber: 5.6 Consensus size: 27
19115729 TAAAAATTAT
*
19115739 ATTTTTGACCCTAAACTTCCAAAAATCAC
1 ATTTTT-ACCCTAAACTTCC-AAAATGAC
19115768 ATTTTTAACCC-AAACTTCCCAAAATGAC
1 ATTTTT-ACCCTAAACTT-CCAAAATGAC
* *
19115796 ATTTTTATCCCTAAAACTTCCAAAATTAT
1 ATTTTTA-CCCT-AAACTTCCAAAATGAC
* **
19115825 GTTTTTACCCCGAACTTTCCTAAAATGAC
1 ATTTTTACCCTAAAC-TTCC-AAAATGAC
* * *
19115854 ATTCTTACCCCTAAAAATTTCCAAAATTAC
1 ATTTTTA-CCCT--AAACTTCCAAAATGAC
* *
19115884 ATTTTAACCCCAAACT
1 ATTTTTACCCTAAACT
19115900 CTTCAAATTT
Statistics
Matches: 104, Mismatches: 19, Indels: 20
0.73 0.13 0.14
Matches are distributed among these distances:
27 8 0.08
28 29 0.28
29 40 0.38
30 21 0.20
31 4 0.04
32 2 0.02
ACGTcount: A:0.37, C:0.27, G:0.03, T:0.34
Consensus pattern (27 bp):
ATTTTTACCCTAAACTTCCAAAATGAC
Found at i:19116002 original size:19 final size:18
Alignment explanation
Indices: 19115954--19116003 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
19115944 CGTATATAAA
19115954 TTTTAATTT-TTTTTTAT
1 TTTTAATTTATTTTTTAT
*
19115971 TTTTAATTAATTTTTTAT
1 TTTTAATTTATTTTTTAT
*
19115989 TTTCTCATTTATTTT
1 TTT-TAATTTATTTT
19116004 GATTCATAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
17 8 0.29
18 11 0.39
19 9 0.32
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTTAATTTATTTTTTAT
Found at i:19116040 original size:15 final size:16
Alignment explanation
Indices: 19116014--19116043 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
19116004 GATTCATAAT
19116014 TCATATTTTATTTTTC
1 TCATATTTTATTTTTC
19116030 TCATA-TTTATTTTT
1 TCATATTTTATTTTT
19116044 GTATATTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.20, C:0.10, G:0.00, T:0.70
Consensus pattern (16 bp):
TCATATTTTATTTTTC
Found at i:19127855 original size:39 final size:39
Alignment explanation
Indices: 19127806--19128094 Score: 300
Period size: 39 Copynumber: 7.4 Consensus size: 39
19127796 TAGCCATTCG
19127806 ATCTCTTACCCCGAGCTTGGGGCAGATCACCATCAGCCA
1 ATCTCTTACCCCGAGCTTGGGGCAGATCACCATCAGCCA
** * *
19127845 ATCTCTTACCCCGAGCTTGGGGCAGAT-TGCAGTCATCCG
1 ATCTCTTACCCCGAGCTTGGGGCAGATCACCA-TCAGCCA
* * ** *
19127884 ATTTTTTACCCTAAGCTTGGGGTAGATCACCATCAGCCA
1 ATCTCTTACCCCGAGCTTGGGGCAGATCACCATCAGCCA
* * * * * ** *
19127923 ATCTCTTACCCCGAGCCTAGGGCAAATTACAATCATTCG
1 ATCTCTTACCCCGAGCTTGGGGCAGATCACCATCAGCCA
* *
19127962 ATCTTTTACCCCGAGCTTGGGGCAGATTACCATCAGCCA
1 ATCTCTTACCCCGAGCTTGGGGCAGATCACCATCAGCCA
*
19128001 ATCTCTTACCCCGAACTTGGGGCAGATTGCAGCCATTC-G---
1 ATCTCTTACCCCGAGCTTGGGGCAGA-T-CA-CCA-TCAGCCA
* *
19128040 ATCTTTTACCCCGAGCTTGGGACAGATCACCATCAGCCA
1 ATCTCTTACCCCGAGCTTGGGGCAGATCACCATCAGCCA
19128079 ATCTCTTACCCCGAGC
1 ATCTCTTACCCCGAGC
19128095 CAGAGGTAGA
Statistics
Matches: 199, Mismatches: 41, Indels: 20
0.77 0.16 0.08
Matches are distributed among these distances:
35 2 0.01
36 4 0.02
37 2 0.01
38 3 0.02
39 178 0.89
40 3 0.02
41 1 0.01
42 4 0.02
43 2 0.01
ACGTcount: A:0.23, C:0.32, G:0.20, T:0.25
Consensus pattern (39 bp):
ATCTCTTACCCCGAGCTTGGGGCAGATCACCATCAGCCA
Found at i:19127919 original size:78 final size:78
Alignment explanation
Indices: 19127790--19128094 Score: 457
Period size: 78 Copynumber: 3.9 Consensus size: 78
19127780 CAAGAAGGGT
* * *
19127790 AGATTGTAGCCATTCGATCTCTTACCCCGAGCTTGGGGCAGATCACCATCAGCCAATCTCTTACC
1 AGATTGCAGTCATTCGATCTTTTACCCCGAGCTTGGGGCAGATCACCATCAGCCAATCTCTTACC
19127855 CCGAGCTTGGGGC
66 CCGAGCTTGGGGC
* * ** *
19127868 AGATTGCAGTCATCCGATTTTTTACCCTAAGCTTGGGGTAGATCACCATCAGCCAATCTCTTACC
1 AGATTGCAGTCATTCGATCTTTTACCCCGAGCTTGGGGCAGATCACCATCAGCCAATCTCTTACC
* *
19127933 CCGAGCCTAGGGC
66 CCGAGCTTGGGGC
* * * *
19127946 AAATTACAATCATTCGATCTTTTACCCCGAGCTTGGGGCAGATTACCATCAGCCAATCTCTTACC
1 AGATTGCAGTCATTCGATCTTTTACCCCGAGCTTGGGGCAGATCACCATCAGCCAATCTCTTACC
*
19128011 CCGAACTTGGGGC
66 CCGAGCTTGGGGC
* *
19128024 AGATTGCAGCCATTCGATCTTTTACCCCGAGCTTGGGACAGATCACCATCAGCCAATCTCTTACC
1 AGATTGCAGTCATTCGATCTTTTACCCCGAGCTTGGGGCAGATCACCATCAGCCAATCTCTTACC
19128089 CCGAGC
66 CCGAGC
19128095 CAGAGGTAGA
Statistics
Matches: 198, Mismatches: 29, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
78 198 1.00
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26
Consensus pattern (78 bp):
AGATTGCAGTCATTCGATCTTTTACCCCGAGCTTGGGGCAGATCACCATCAGCCAATCTCTTACC
CCGAGCTTGGGGC
Found at i:19128127 original size:156 final size:155
Alignment explanation
Indices: 19127806--19128129 Score: 454
Period size: 156 Copynumber: 2.1 Consensus size: 155
19127796 TAGCCATTCG
*
19127806 ATCTCTTACCCCGAGCTTGGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCTTGGGGCAGA
1 ATCTCTTACCCCGAGCTTGGGGCAGATCACCATCAGCCAATCTCTTACCCCGAACTTGGGGCAGA
* * * **
19127871 TTGCAGTCATCCGATTTTTTACCCTAAGCTTGGGGTAGATCACCATCAGCCAATCTCTTACCCCG
66 TTGCAGCCATCCGATCTTTTACCCCAAGCTTGGGACAGATCACCATCAGCCAATCTCTTACCCCG
* ** *
19127936 AGCCTAGGGCAAATTACAATCATTC
131 AGCCTAGGGCAAATTAAAAAAAATC
* *
19127961 GATCTTTTACCCCGAGCTTGGGGCAGATTACCATCAGCCAATCTCTTACCCCGAACTTGGGGCAG
1 -ATCTCTTACCCCGAGCTTGGGGCAGATCACCATCAGCCAATCTCTTACCCCGAACTTGGGGCAG
* *
19128026 ATTGCAGCCATTCGATCTTTTACCCCGAGCTTGGGACAGATCACCATCAGCCAATCTCTTACCCC
65 ATTGCAGCCATCCGATCTTTTACCCCAAGCTTGGGACAGATCACCATCAGCCAATCTCTTACCCC
* *
19128091 GAGCC-AGAGGTAGATTGTAAAAAAAATC
130 GAGCCTAG-GGCA-AAT-TAAAAAAAATC
19128119 -TCTCTTACCCC
1 ATCTCTTACCCC
19128130 CAGTCATGAG
Statistics
Matches: 148, Mismatches: 17, Indels: 6
0.87 0.10 0.04
Matches are distributed among these distances:
155 2 0.01
156 137 0.93
157 2 0.01
158 7 0.05
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (155 bp):
ATCTCTTACCCCGAGCTTGGGGCAGATCACCATCAGCCAATCTCTTACCCCGAACTTGGGGCAGA
TTGCAGCCATCCGATCTTTTACCCCAAGCTTGGGACAGATCACCATCAGCCAATCTCTTACCCCG
AGCCTAGGGCAAATTAAAAAAAATC
Found at i:19128602 original size:7 final size:7
Alignment explanation
Indices: 19128590--19128614 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
19128580 AATTGAACCC
19128590 AATTTTA
1 AATTTTA
19128597 AATTTTA
1 AATTTTA
19128604 AATTTTA
1 AATTTTA
19128611 AATT
1 AATT
19128615 ATTTTAAGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
AATTTTA
Found at i:19128618 original size:17 final size:17
Alignment explanation
Indices: 19128598--19128684 Score: 104
Period size: 17 Copynumber: 5.1 Consensus size: 17
19128588 CCAATTTTAA
19128598 ATTTTAAATTTTAAA-TT
1 ATTTTAAA-TTTAAATTT
*
19128615 ATTTTAAGTTTAAATTT
1 ATTTTAAATTTAAATTT
* *
19128632 ATTTTAAATCTAAACTT
1 ATTTTAAATTTAAATTT
*
19128649 ATTTTTGAATTTAAATTT
1 A-TTTTAAATTTAAATTT
*
19128667 ATTTTGAATTTAAATTT
1 ATTTTAAATTTAAATTT
19128684 A
1 A
19128685 AAATTTAATT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
16 6 0.10
17 41 0.67
18 14 0.23
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.56
Consensus pattern (17 bp):
ATTTTAAATTTAAATTT
Found at i:19128632 original size:6 final size:6
Alignment explanation
Indices: 19128593--19128692 Score: 55
Period size: 6 Copynumber: 16.8 Consensus size: 6
19128583 TGAACCCAAT
* * *
19128593 TTTAAA TTTTAAA TTTTAAA -TT-AT TTTAAG TTTAAA TTT-AT TTTAAA
1 TTTAAA -TTTAAA -TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * ** * * *
19128640 TCTAAA CTTATT TTTGAA TTTAAA TTT-AT TTTGAA TTTAAA TTTAAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTT-AAA
19128688 TTTAA
1 TTTAA
19128693 TTAAAAATCC
Statistics
Matches: 70, Mismatches: 18, Indels: 11
0.71 0.18 0.11
Matches are distributed among these distances:
4 1 0.01
5 12 0.17
6 38 0.54
7 19 0.27
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (6 bp):
TTTAAA
Found at i:19128669 original size:35 final size:33
Alignment explanation
Indices: 19128598--19128682 Score: 109
Period size: 35 Copynumber: 2.5 Consensus size: 33
19128588 CCAATTTTAA
19128598 ATTTTAAATTTTAAATTATTTTAAGTTTAAATTT
1 ATTTTAAA-TTTAAATTATTTTAAGTTTAAATTT
*
19128632 ATTTTAAATCTAAACTTATTTTTGAA-TTTAAATTT
1 ATTTTAAATTTAAA-TTA-TTTT-AAGTTTAAATTT
*
19128667 ATTTTGAATTTAAATT
1 ATTTTAAATTTAAATT
19128683 TAAAATTTAA
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
33 5 0.11
34 13 0.29
35 25 0.56
36 2 0.04
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (33 bp):
ATTTTAAATTTAAATTATTTTAAGTTTAAATTT
Found at i:19130267 original size:30 final size:30
Alignment explanation
Indices: 19130210--19130317 Score: 114
Period size: 30 Copynumber: 3.7 Consensus size: 30
19130200 TCCCAAAAGG
* * * *
19130210 CCCCTAAACTTTTCTAAAATCACATTTTGA
1 CCCCTAAACTTCTCAAAAATTATATTTTGA
*
19130240 CCCCTAAACTTCTCAAAAATTATATTTTTA
1 CCCCTAAACTTCTCAAAAATTATATTTTGA
* *
19130270 CCCTTGAACTTCT-AAAAATTATATTTTTG-
1 CCCCTAAACTTCTCAAAAATTATA-TTTTGA
*
19130299 CCCCTGAACTTC-CAAAAAT
1 CCCCTAAACTTCTCAAAAAT
19130318 CACATTTTTA
Statistics
Matches: 67, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
29 27 0.40
30 40 0.60
ACGTcount: A:0.34, C:0.25, G:0.04, T:0.37
Consensus pattern (30 bp):
CCCCTAAACTTCTCAAAAATTATATTTTGA
Found at i:19130287 original size:29 final size:29
Alignment explanation
Indices: 19130233--19130419 Score: 128
Period size: 29 Copynumber: 6.4 Consensus size: 29
19130223 CTAAAATCAC
* *
19130233 ATTTTGACCCCTAAACTTCTCAAAAATTAT
1 ATTTTTACCCCTGAACTTCT-AAAAATTAT
*
19130263 ATTTTTACCCTTGAACTTCTAAAAATTAT
1 ATTTTTACCCCTGAACTTCTAAAAATTAT
* * * *
19130292 ATTTTTGCCCCTGAACTTCCAAAAATCAC
1 ATTTTTACCCCTGAACTTCTAAAAATTAT
* ** * *
19130321 ATTTTTAACCC-GAACTTCCCAAAATGAA
1 ATTTTTACCCCTGAACTTCTAAAAATTAT
* * *
19130349 ATTTTTATCCCTAAAACATTC-CAAAATTAT
1 ATTTTTACCCCT-GAAC-TTCTAAAAATTAT
* * ** * *
19130379 GTTTTTATCCC-GAACTTTCCCAAAATGAC
1 ATTTTTACCCCTGAAC-TTCTAAAAATTAT
19130408 ATTTTTACCCCT
1 ATTTTTACCCCT
19130420 AAAACTTTTC
Statistics
Matches: 128, Mismatches: 24, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
28 30 0.23
29 58 0.45
30 37 0.29
31 3 0.02
ACGTcount: A:0.34, C:0.25, G:0.05, T:0.37
Consensus pattern (29 bp):
ATTTTTACCCCTGAACTTCTAAAAATTAT
Found at i:19130375 original size:30 final size:30
Alignment explanation
Indices: 19130333--19130434 Score: 100
Period size: 30 Copynumber: 3.4 Consensus size: 30
19130323 TTTTAACCCG
*
19130333 AACTTCCCAAAATGAAATTTTTATCCCTAA
1 AACTTTCCAAAATGAAATTTTTATCCCTAA
* * ** *
19130363 AACATTCCAAAATTATGTTTTTATCCC--G
1 AACTTTCCAAAATGAAATTTTTATCCCTAA
* *
19130391 AACTTTCCCAAAATGACATTTTTACCCCTAA
1 AACTTT-CCAAAATGAAATTTTTATCCCTAA
*
19130422 AACTTTTCAAAAT
1 AACTTTCCAAAAT
19130435 TACGTTTTAA
Statistics
Matches: 56, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
28 5 0.09
29 17 0.30
30 28 0.50
31 6 0.11
ACGTcount: A:0.37, C:0.24, G:0.04, T:0.35
Consensus pattern (30 bp):
AACTTTCCAAAATGAAATTTTTATCCCTAA
Found at i:19130405 original size:59 final size:58
Alignment explanation
Indices: 19130292--19130447 Score: 183
Period size: 59 Copynumber: 2.7 Consensus size: 58
19130282 TAAAAATTAT
* * * *
19130292 ATTTTTGCCCCT-GAAC-TTCCAAAAATCACATTTTTAACCCGAACTTCCCAAAATGAA
1 ATTTTTACCCCTAAAACATTCC-AAAATTACGTTTTTAACCCGAACTTCCCAAAATGAA
* * * *
19130349 ATTTTTATCCCTAAAACATTCCAAAATTATGTTTTTATCCCGAACTTTCCCAAAATGAC
1 ATTTTTACCCCTAAAACATTCCAAAATTACGTTTTTAACCCGAAC-TTCCCAAAATGAA
* *
19130408 ATTTTTACCCCTAAAACTTTTCAAAATTACG-TTTTAACCC
1 ATTTTTACCCCTAAAACATTCCAAAATTACGTTTTTAACCC
19130448 CAAACTCTCC
Statistics
Matches: 83, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
57 10 0.12
58 30 0.36
59 43 0.52
ACGTcount: A:0.34, C:0.26, G:0.05, T:0.35
Consensus pattern (58 bp):
ATTTTTACCCCTAAAACATTCCAAAATTACGTTTTTAACCCGAACTTCCCAAAATGAA
Found at i:19131925 original size:31 final size:30
Alignment explanation
Indices: 19131882--19131940 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
19131872 TACACAAGAT
* *
19131882 TTTTCTTCTCTCTGAATTTTTTTTTCTCTTC
1 TTTTCTTCTCTCTG-ATTCTTCTTTCTCTTC
*
19131913 TTTTCTTTTCTCTGATTCTTCTTTCTCT
1 TTTTCTTCTCTCTGATTCTTCTTTCTCT
19131941 CGTTTTAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 12 0.48
31 13 0.52
ACGTcount: A:0.05, C:0.24, G:0.03, T:0.68
Consensus pattern (30 bp):
TTTTCTTCTCTCTGATTCTTCTTTCTCTTC
Found at i:19131937 original size:15 final size:15
Alignment explanation
Indices: 19131879--19131940 Score: 56
Period size: 15 Copynumber: 4.0 Consensus size: 15
19131869 CAATACACAA
19131879 GATTTTTCTTCTCTCT
1 GATTTTTCTT-TCTCT
*
19131895 GAATTTTTTTTTCTCT
1 G-ATTTTTCTTTCTCT
19131911 --TCTTTTCTTTTCTCT
1 GAT-TTTTC-TTTCTCT
*
19131926 GATTCTTCTTTCTCT
1 GATTTTTCTTTCTCT
19131941 CGTTTTAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 11
0.73 0.06 0.21
Matches are distributed among these distances:
13 1 0.03
14 4 0.11
15 14 0.37
16 10 0.26
17 9 0.24
ACGTcount: A:0.06, C:0.23, G:0.05, T:0.66
Consensus pattern (15 bp):
GATTTTTCTTTCTCT
Found at i:19139165 original size:20 final size:21
Alignment explanation
Indices: 19139122--19139165 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
19139112 TTCGCATACC
* **
19139122 TATAATTTTTAAAAATATTCT
1 TATAATTTTCAAAAATATGAT
19139143 TATAATTTTCAAAAATA-GAT
1 TATAATTTTCAAAAATATGAT
19139163 TAT
1 TAT
19139166 GATATTTATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (21 bp):
TATAATTTTCAAAAATATGAT
Found at i:19139897 original size:16 final size:17
Alignment explanation
Indices: 19139869--19139900 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
19139859 TAATATATTT
19139869 TATAAATATATTTTTAA
1 TATAAATATATTTTTAA
19139886 TATAAA-ATATTTTTA
1 TATAAATATATTTTTA
19139901 TTCACCAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TATAAATATATTTTTAA
Found at i:19140124 original size:21 final size:22
Alignment explanation
Indices: 19140098--19140140 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
19140088 GCACTTGGCT
19140098 AAGAAA-AAGG-TAGAGAAGATG
1 AAGAAAGAAGGATAGAG-AGATG
19140119 AAGAAAGAAGGATAGAGAGATG
1 AAGAAAGAAGGATAGAGAGATG
19140141 CTATTTTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 6 0.30
22 9 0.45
23 5 0.25
ACGTcount: A:0.56, C:0.00, G:0.35, T:0.09
Consensus pattern (22 bp):
AAGAAAGAAGGATAGAGAGATG
Found at i:19140796 original size:20 final size:19
Alignment explanation
Indices: 19140755--19140797 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
19140745 CAACTTTCAA
**
19140755 TTTTTTTAATCAAAAATTT
1 TTTTTTTAATCAAAAACCT
*
19140774 TTTTATTTAATCAAAACCCT
1 TTTT-TTTAATCAAAAACCT
19140794 TTTT
1 TTTT
19140798 GATATATGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.33, C:0.12, G:0.00, T:0.56
Consensus pattern (19 bp):
TTTTTTTAATCAAAAACCT
Found at i:19141710 original size:27 final size:29
Alignment explanation
Indices: 19141666--19141720 Score: 87
Period size: 27 Copynumber: 2.0 Consensus size: 29
19141656 TAGTTGACAG
19141666 AAAAAAAAGTACAGGTACCAATCTGGGAC
1 AAAAAAAAGTACAGGTACCAATCTGGGAC
*
19141695 AAAAAAACGTA-A-GTACCAATCTGGGA
1 AAAAAAAAGTACAGGTACCAATCTGGGA
19141721 GAAGTGAACA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 14 0.56
28 1 0.04
29 10 0.40
ACGTcount: A:0.49, C:0.16, G:0.20, T:0.15
Consensus pattern (29 bp):
AAAAAAAAGTACAGGTACCAATCTGGGAC
Found at i:19141793 original size:24 final size:24
Alignment explanation
Indices: 19141764--19141812 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
19141754 TAACCCATTT
*
19141764 ATTTTTTAATTTATTAAATA-ATATA
1 ATTTTATAATTT-TTAA-TAGATATA
19141789 ATTTTATAATTTTTAATAGATATA
1 ATTTTATAATTTTTAATAGATATA
19141813 TATATATATC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 2 0.09
24 9 0.41
25 11 0.50
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (24 bp):
ATTTTATAATTTTTAATAGATATA
Found at i:19148058 original size:20 final size:20
Alignment explanation
Indices: 19148029--19148072 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 20
19148019 TCATTGTTTA
*
19148029 ATTGAGTTT-ATTTTATATCT
1 ATTGAATTTAATTTTATAT-T
19148049 ATTGAATTTACATTTTATATT
1 ATTGAATTTA-ATTTTATATT
19148070 ATT
1 ATT
19148073 TTTACATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 8 0.38
21 4 0.19
22 9 0.43
ACGTcount: A:0.30, C:0.05, G:0.07, T:0.59
Consensus pattern (20 bp):
ATTGAATTTAATTTTATATT
Found at i:19148231 original size:46 final size:46
Alignment explanation
Indices: 19148163--19148250 Score: 131
Period size: 46 Copynumber: 1.9 Consensus size: 46
19148153 AAGTGAATTG
* ** *
19148163 ATGATAACCACAATATTTTCCAAGTGCATAACTAGTATTACACCAC
1 ATGATAACCACAACATCGTCCAAGTGCATAACTAATATTACACCAC
*
19148209 ATGATAACTACAACATCGTCCAAGTGCATAACTAATATTACA
1 ATGATAACCACAACATCGTCCAAGTGCATAACTAATATTACA
19148251 AATTAGTAGT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.41, C:0.23, G:0.09, T:0.27
Consensus pattern (46 bp):
ATGATAACCACAACATCGTCCAAGTGCATAACTAATATTACACCAC
Found at i:19151470 original size:24 final size:25
Alignment explanation
Indices: 19151420--19151471 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 25
19151410 AAATAACTTT
19151420 AGCTTCAATTATCATATAAGAGAAGA
1 AGCTTCAATTATCA-ATAAGAGAAGA
* *
19151446 AGCTTGAATTATC-ATAAGAGGAGA
1 AGCTTCAATTATCAATAAGAGAAGA
19151470 AG
1 AG
19151472 ATACATCCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 12 0.50
26 12 0.50
ACGTcount: A:0.44, C:0.10, G:0.21, T:0.25
Consensus pattern (25 bp):
AGCTTCAATTATCAATAAGAGAAGA
Found at i:19153137 original size:51 final size:51
Alignment explanation
Indices: 19153035--19153149 Score: 124
Period size: 51 Copynumber: 2.3 Consensus size: 51
19153025 TGTAGTGCTA
* * *
19153035 AATATTAA-TTTTAATTAGTATATAATTGTAACACTAATTAAGTAATAATT
1 AATATAAATTTTTAATCAGTATATAATTGTAACACTAATTAAATAATAATT
* * * * * *
19153085 AATATAAATTTTTAATCGGTATATAATTTTAATATTAATTAAATGATCATT
1 AATATAAATTTTTAATCAGTATATAATTGTAACACTAATTAAATAATAATT
*
19153136 AATAAATAATTTTT
1 AATATA-AATTTTT
19153150 TATTTTATGC
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
50 7 0.13
51 39 0.74
52 7 0.13
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.46
Consensus pattern (51 bp):
AATATAAATTTTTAATCAGTATATAATTGTAACACTAATTAAATAATAATT
Found at i:19154993 original size:31 final size:30
Alignment explanation
Indices: 19154953--19155010 Score: 98
Period size: 31 Copynumber: 1.9 Consensus size: 30
19154943 TTATAATACG
19154953 TTAAAATAAATAATTAAAACATAATTTTTT
1 TTAAAATAAATAATTAAAACATAATTTTTT
*
19154983 TTAAATATAAATAATTAAAATATAATTT
1 TTAAA-ATAAATAATTAAAACATAATTT
19155011 AAAAATAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
30 5 0.19
31 21 0.81
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (30 bp):
TTAAAATAAATAATTAAAACATAATTTTTT
Found at i:19157409 original size:33 final size:32
Alignment explanation
Indices: 19157340--19157411 Score: 99
Period size: 33 Copynumber: 2.2 Consensus size: 32
19157330 TATAAGATTA
* *
19157340 TTTAACTAATAAACAATATAATGGTTTTACCT
1 TTTAACTAATAAACAAGATAATGGTTTTACCG
**
19157372 TTTAACTACATAAACAAGATAATGGTTTTGTCG
1 TTTAACTA-ATAAACAAGATAATGGTTTTACCG
19157405 TTTAACT
1 TTTAACT
19157412 TAATGAGTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
32 8 0.23
33 27 0.77
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (32 bp):
TTTAACTAATAAACAAGATAATGGTTTTACCG
Found at i:19157646 original size:23 final size:21
Alignment explanation
Indices: 19157620--19157665 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
19157610 AATAACTTGA
*
19157620 TTAACTCAAATAATTTGAACTAT
1 TTAACTC-AA-AATTTAAACTAT
*
19157643 TTAATTCAAAATTTAAACTAT
1 TTAACTCAAAATTTAAACTAT
19157664 TT
1 TT
19157666 TTCGAGTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 13 0.62
22 2 0.10
23 6 0.29
ACGTcount: A:0.43, C:0.11, G:0.02, T:0.43
Consensus pattern (21 bp):
TTAACTCAAAATTTAAACTAT
Found at i:19160722 original size:17 final size:17
Alignment explanation
Indices: 19160700--19160766 Score: 80
Period size: 17 Copynumber: 3.8 Consensus size: 17
19160690 ATTAAATCCA
*
19160700 ATTTTTATTTTAAATTT
1 ATTTTTAATTTAAATTT
* *
19160717 ATTTTTAGTTTAAAATT
1 ATTTTTAATTTAAATTT
*
19160734 ATTTTAAATTTAAATTT
1 ATTTTTAATTTAAATTT
19160751 ATTTTTTAAATTTAAA
1 A-TTTTT-AATTTAAA
19160767 ATTTGAAATA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
17 30 0.71
18 4 0.10
19 8 0.19
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.61
Consensus pattern (17 bp):
ATTTTTAATTTAAATTT
Found at i:19162661 original size:29 final size:29
Alignment explanation
Indices: 19162627--19162950 Score: 214
Period size: 29 Copynumber: 11.1 Consensus size: 29
19162617 CCCAAATGGT
*
19162627 CCCCCGAACTTCTAAAAATTACCATTTTA
1 CCCCCGAACTTCCAAAAATTACCATTTTA
** *
19162656 CCCCCGAACTTAAAAAAAAT-CACATTTTTA
1 CCCCCGAACTTCCAAAAATTAC-CA-TTTTA
*
19162686 CCCTCGAACTTCC-AAAATTACCATTTTA
1 CCCCCGAACTTCCAAAAATTACCATTTTA
** ** *
19162714 CCCCTAAACTTTTAAAAA-TATCATTTTTGA
1 CCCCCGAACTTCCAAAAATTACCA-TTTT-A
* **
19162744 -CCCTGAACTTTCCAAAAATTGTCATTTTA
1 CCCCCGAAC-TTCCAAAAATTACCATTTTA
* *
19162773 CCCCCAAACTTCCAAAAATTA-CATTTTTG
1 CCCCCGAACTTCCAAAAATTACCA-TTTTA
* ***
19162802 CTCCCGAACTTTTGAAAATTACCATTTTA
1 CCCCCGAACTTCCAAAAATTACCATTTTA
* *
19162831 CCCCCAAACATCCAAAAATTACCATTTTA
1 CCCCCGAACTTCCAAAAATTACCATTTTA
* * * *
19162860 CCTCCG-AGTGTCCAAAAAGTACCATTTTT
1 CCCCCGAACT-TCCAAAAATTACCATTTTA
* ** * *
19162889 GCCTTG-ATTGTCCAAAAATTACCGTTTTA
1 CCCCCGAACT-TCCAAAAATTACCATTTTA
* *
19162918 TCCCCCGTACCTT-TAAAAATTACCATTTTA
1 -CCCCCG-AACTTCCAAAAATTACCATTTTA
19162948 CCC
1 CCC
19162951 TCTAGCATCT
Statistics
Matches: 226, Mismatches: 54, Indels: 30
0.73 0.17 0.10
Matches are distributed among these distances:
28 21 0.09
29 145 0.64
30 54 0.24
31 5 0.02
32 1 0.00
ACGTcount: A:0.33, C:0.28, G:0.06, T:0.33
Consensus pattern (29 bp):
CCCCCGAACTTCCAAAAATTACCATTTTA
Found at i:19162773 original size:59 final size:58
Alignment explanation
Indices: 19162631--19162858 Score: 216
Period size: 59 Copynumber: 3.9 Consensus size: 58
19162621 AATGGTCCCC
* * * *
19162631 CGAACTTCTAAAAATTACCATTTTACCCCCGAACTT-AAAAAAAATCACATTTTT-ACCCT
1 CGAACTTC-CAAAATTACCATTTTACCCCCAAACTTCCAAAAATAT--CATTTTTGACCCT
* **
19162690 CGAACTTCCAAAATTACCATTTTACCCCTAAACTTTTAAAAATATCATTTTTGACCCT
1 CGAACTTCCAAAATTACCATTTTACCCCCAAACTTCCAAAAATATCATTTTTGACCCT
**
19162748 -GAACTTTCCAAAAATTGTCATTTTACCCCCAAACTTCCAAAAAT-TACATTTTTG-CTCC-
1 CGAAC-TTCC-AAAATTACCATTTTACCCCCAAACTTCCAAAAATAT-CATTTTTGAC-CCT
** * *
19162806 CGAACTTTTGAAAATTACCATTTTACCCCCAAACATCCAAAAATTACCATTTT
1 CGAAC-TTCCAAAATTACCATTTTACCCCCAAACTTCCAAAAA-TATCATTTT
19162859 ACCTCCGAGT
Statistics
Matches: 144, Mismatches: 16, Indels: 18
0.81 0.09 0.10
Matches are distributed among these distances:
57 11 0.08
58 65 0.45
59 68 0.47
ACGTcount: A:0.36, C:0.27, G:0.04, T:0.33
Consensus pattern (58 bp):
CGAACTTCCAAAATTACCATTTTACCCCCAAACTTCCAAAAATATCATTTTTGACCCT
Found at i:19163286 original size:97 final size:97
Alignment explanation
Indices: 19163181--19163369 Score: 290
Period size: 97 Copynumber: 1.9 Consensus size: 97
19163171 TAAACCTTTA
* *
19163181 AAATCGAGGCAATATTCCTTTATTTC-GAGATTTGAAAATTTATGCCTTAACTTGCTAGGCGCGA
1 AAATCGAGGCAATATTCCTTTATTTCTG-GATTTAAAAATTTATGCCTTAACTTACTAGGCGCGA
19163245 TTTTTCTTCAAATCGGAATAATCGAATACCCTT
65 TTTTTCTTCAAATCGGAATAATCGAATACCCTT
* * * *
19163278 AAATCGAGGCAATGTTTCTTTATTTCTGGTTTTAAAAATTTATGCCTTAACTTACTAGGTGCGAT
1 AAATCGAGGCAATATTCCTTTATTTCTGGATTTAAAAATTTATGCCTTAACTTACTAGGCGCGAT
* *
19163343 TTTTCTTCAAATCGGGATAGTCGAATA
66 TTTTCTTCAAATCGGAATAATCGAATA
19163370 TCTTTTTCCA
Statistics
Matches: 83, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
97 82 0.99
98 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.38
Consensus pattern (97 bp):
AAATCGAGGCAATATTCCTTTATTTCTGGATTTAAAAATTTATGCCTTAACTTACTAGGCGCGAT
TTTTCTTCAAATCGGAATAATCGAATACCCTT
Found at i:19173384 original size:42 final size:41
Alignment explanation
Indices: 19173311--19173411 Score: 96
Period size: 41 Copynumber: 2.4 Consensus size: 41
19173301 GGATTGCGAT
* *
19173311 GAAAACCCACAAAAGGGCATCTCAATGCTAAAAAGATTAAGAC
1 GAAAACCCGC-AAAGGGCATCTCAATACT-AAAAGATTAAGAC
* * * * **
19173354 GAAAACCCGCAAAGGGCATCTTGAA-ACTAAAGGTTTGAGTT
1 GAAAACCCGCAAAGGGCATC-TCAATACTAAAAGATTAAGAC
19173395 GAAAACCCGCAAAGGGC
1 GAAAACCCGCAAAGGGC
19173412 GACTCAAAAT
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
41 25 0.51
42 12 0.24
43 12 0.24
ACGTcount: A:0.43, C:0.21, G:0.22, T:0.15
Consensus pattern (41 bp):
GAAAACCCGCAAAGGGCATCTCAATACTAAAAGATTAAGAC
Found at i:19174562 original size:208 final size:207
Alignment explanation
Indices: 19174188--19174736 Score: 794
Period size: 208 Copynumber: 2.6 Consensus size: 207
19174178 CAAAACAACG
* * * * *
19174188 AAGCGGTTACCTTTCAGATGAGATACAGAGAAGCAAACTGAATCCGTCTTCCTGATGAGACATAG
1 AAGCGGTTACC-TTCTGATGAGATACAGAGAAGGAACCAG-ATCCGTCTTCCTGATGAGACACAG
* * * *
19174253 AGAAGTGGATCAAAACAAGTGATACGTTCATCTTCCTGATGTGATACTGAGAAGTAGACCAAATC
64 AGAAGTGGATCAAAACAAGTGATGCGATCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATC
* * *
19174318 AATGAAACAAAGCTTAATGTGAGCAAAACTTCGAACCCGAGCTTCCTGATGAGATACTGAGAAGC
129 AATGAAACAAAGCTCAAAGTGAGCAAAACTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGC
19174383 AGGTCAAAGCAATA
194 AGGTCAAAGCAATA
*
19174397 AAGCGGTTACCTTCTGATGAGATATAGAGAAGTGAACCAGATCCGTCTTCCTGATGAGACACAGA
1 AAGCGGTTACCTTCTGATGAGATACAGAGAAG-GAACCAGATCCGTCTTCCTGATGAGACACAGA
* * *
19174462 GAAGTGGATCAAAACAAGTGATGCGGTCATCTTCTTGATGAAATACTGAGAAGAAGACCAAATCA
65 GAAGTGGATCAAAACAAGTGATGCGATCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCA
* * * *
19174527 ATGAAACCAGGCTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGTA
130 ATGAAACAAAGCTCAAAGTGAGCAAAACTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCA
*
19174592 GGTCGAAGCAATA
195 GGTCAAAGCAATA
* * * *
19174605 AAGCGGTTACCTTCTTAGTGGGATACAGAGAAGAGAACCGGATCTGTCTTCCTGATGAGACACAG
1 AAGCGGTTACCTTCTGA-TGAGATACAGAGAAG-GAACCAGATCCGTCTTCCTGATGAGACACAG
**
19174670 AGAAGTGGATCAAAACAAGTGATGCGATTGTCTTCCTGATGAGATACTGAGAA-ATAGACCAAAT
64 AGAAGTGGATCAAAACAAGTGATGCGATCATCTTCCTGATGAGATACTGAGAAGA-AGACCAAAT
19174734 CAA
128 CAA
19174737 CGACACCAAA
Statistics
Matches: 306, Mismatches: 31, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
208 189 0.62
209 117 0.38
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.22
Consensus pattern (207 bp):
AAGCGGTTACCTTCTGATGAGATACAGAGAAGGAACCAGATCCGTCTTCCTGATGAGACACAGAG
AAGTGGATCAAAACAAGTGATGCGATCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAA
TGAAACAAAGCTCAAAGTGAGCAAAACTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAG
GTCAAAGCAATA
Found at i:19175051 original size:11 final size:11
Alignment explanation
Indices: 19175035--19175093 Score: 57
Period size: 11 Copynumber: 5.3 Consensus size: 11
19175025 AAACCAAATT
19175035 TTTATTTTAAA
1 TTTATTTTAAA
*
19175046 TTTATTTTAAG
1 TTTATTTTAAA
** *
19175057 TTTAAAATT-AT
1 TTT-ATTTTAAA
19175068 TTTAATTTTAAA
1 TTT-ATTTTAAA
19175080 TTTATTTTAAA
1 TTTATTTTAAA
19175091 TTT
1 TTT
19175094 TTAATTGGAA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
11 32 0.82
12 7 0.18
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.63
Consensus pattern (11 bp):
TTTATTTTAAA
Found at i:19175060 original size:17 final size:17
Alignment explanation
Indices: 19175040--19175089 Score: 82
Period size: 17 Copynumber: 2.9 Consensus size: 17
19175030 AAATTTTTAT
19175040 TTTAAATTTATTTTAAG
1 TTTAAATTTATTTTAAG
* *
19175057 TTTAAAATTATTTTAAT
1 TTTAAATTTATTTTAAG
19175074 TTTAAATTTATTTTAA
1 TTTAAATTTATTTTAA
19175090 ATTTTTAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (17 bp):
TTTAAATTTATTTTAAG
Found at i:19176965 original size:29 final size:29
Alignment explanation
Indices: 19176923--19177334 Score: 228
Period size: 29 Copynumber: 14.1 Consensus size: 29
19176913 ACCAGAAGGT
* *
19176923 CCCTCGAACTTCCAAAAATTATCATTTAA
1 CCCTCAAACTTCCAAAAATTATCATTTTA
* *
19176952 CCCTCAAACTTCCAAAAAATCA-CATTTTTG
1 CCCTCAAACTTCC-AAAAATTATCA-TTTTA
*
19176982 CCC-CTTAACTTCCAAAAATTATCATTTTA
1 CCCTC-AAACTTCCAAAAATTATCATTTTA
* *
19177011 -CCTCTGAACTTCCAAAAAATCA-CATTTTTA
1 CCCTC-AAACTTCC-AAAAATTATCA-TTTTA
*
19177041 CCC-CTAAACTTCCAAAAA-TACCATTTTA
1 CCCTC-AAACTTCCAAAAATTATCATTTTA
* *
19177069 ACCTCGAACTTCCAAAAA-TATCATTTTTGA
1 CCCTCAAACTTCCAAAAATTATCA-TTTT-A
* * * *
19177099 TCCT-GAACTTTCTAAAAATTGTCATTTTA
1 CCCTCAAAC-TTCCAAAAATTATCATTTTA
* *
19177128 CCCCCAAACTTCCAAAAATTA-CATTTTTG
1 CCCTCAAACTTCCAAAAATTATCA-TTTTA
*
19177157 CTCC-CGAGTA-TT-CAAAAATTA-CTATTTTA
1 C-CCTC-A-AACTTCCAAAAATTATC-ATTTTA
*
19177186 CCC-CTGAACTTCCAAAAATTATCATTTTA
1 CCCTC-AAACTTCCAAAAATTATCATTTTA
* * *
19177215 CCCTCAAACATCCAAAAATTACCATTTTG
1 CCCTCAAACTTCCAAAAATTATCATTTTA
* * *
19177244 CCCTC-GAGTGTCCAAAAATTACCATTTT-
1 CCCTCAAACT-TCCAAAAATTATCATTTTA
** * *
19177272 CGCC-CTGATTATCCAAAAATTATCGTTTTA
1 C-CCTCAAACT-TCCAAAAATTATCATTTTA
** * * *
19177302 TCCCTTGAACCTCTAAAAATTACCATTTTA
1 -CCCTCAAACTTCCAAAAATTATCATTTTA
19177332 CCC
1 CCC
19177335 CCGGGCATCC
Statistics
Matches: 306, Mismatches: 47, Indels: 60
0.74 0.11 0.15
Matches are distributed among these distances:
27 1 0.00
28 36 0.12
29 172 0.56
30 88 0.29
31 9 0.03
ACGTcount: A:0.34, C:0.27, G:0.05, T:0.34
Consensus pattern (29 bp):
CCCTCAAACTTCCAAAAATTATCATTTTA
Found at i:19177021 original size:59 final size:59
Alignment explanation
Indices: 19176923--19177203 Score: 276
Period size: 59 Copynumber: 4.8 Consensus size: 59
19176913 ACCAGAAGGT
* *
19176923 CCCTCGAACTTCCAAAAATTATCA-TTTAACCCTCAAACTTCCAAAAAATCACATTTTTGC
1 CCCT-GAACTTCCAAAAATTATCATTTTACCCCT-GAACTTCCAAAAAATCACATTTTTGC
* * *
19176983 CCCTTAACTTCCAAAAATTATCATTTTACCTCTGAACTTCCAAAAAATCACATTTTTAC
1 CCCTGAACTTCCAAAAATTATCATTTTACCCCTGAACTTCCAAAAAATCACATTTTTGC
* * * *
19177042 CCCTAAACTTCCAAAAA-TACCATTTTA-ACCTCGAACTTCC-AAAAAT-ATCATTTTTGA
1 CCCTGAACTTCCAAAAATTATCATTTTACCCCT-GAACTTCCAAAAAATCA-CATTTTTGC
* * * ** *
19177099 TCCTGAACTTTCTAAAAATTGTCATTTTACCCCCAAACTTCC-AAAAATTACATTTTTGC
1 CCCTGAAC-TTCCAAAAATTATCATTTTACCCCTGAACTTCCAAAAAATCACATTTTTGC
19177158 TCCC-GAGTA-TT-CAAAAATTA-CTATTTTACCCCTGAACTTCCAAAAA
1 -CCCTGA--ACTTCCAAAAATTATC-ATTTTACCCCTGAACTTCCAAAAA
19177204 TTATCATTTT
Statistics
Matches: 184, Mismatches: 25, Indels: 25
0.79 0.11 0.11
Matches are distributed among these distances:
56 1 0.01
57 22 0.12
58 49 0.27
59 95 0.52
60 16 0.09
61 1 0.01
ACGTcount: A:0.36, C:0.27, G:0.04, T:0.33
Consensus pattern (59 bp):
CCCTGAACTTCCAAAAATTATCATTTTACCCCTGAACTTCCAAAAAATCACATTTTTGC
Found at i:19177116 original size:58 final size:59
Alignment explanation
Indices: 19176923--19177293 Score: 258
Period size: 59 Copynumber: 6.3 Consensus size: 59
19176913 ACCAGAAGGT
* * *
19176923 CCCTCGAACTTCCAAAAATTATCA-TTTAACCCTCAAACTTCCAAAAA-ATCACATTTTTGC
1 CCCT-GAACTTCCAAAAATTACCATTTTAA-CCTCGAACTTCCAAAAATAT-ACATTTTTGA
* *
19176983 CCCTTAACTTCCAAAAATTATCATTTT-ACCTCTGAACTTCCAAAAA-ATCACATTTTT-A
1 CCCTGAACTTCCAAAAATTACCATTTTAACCTC-GAACTTCCAAAAATAT-ACATTTTTGA
*
19177041 CCCCTAAACTTCCAAAAA-TACCATTTTAACCTCGAACTTCCAAAAATAT-CATTTTTGA
1 -CCCTGAACTTCCAAAAATTACCATTTTAACCTCGAACTTCCAAAAATATACATTTTTGA
* * ** * * *
19177099 TCCTGAACTTTCTAAAAATTGTCATTTTACCCCCAAACTTCCAAAAAT-TACATTTTTG-
1 CCCTGAAC-TTCCAAAAATTACCATTTTAACCTCGAACTTCCAAAAATATACATTTTTGA
* * *
19177157 CTCCCGAGTA-TT-CAAAAATTACTATTTT-ACCCCTGAACTTCCAAAAAT-TATCA-TTTT-A
1 C-CCTGA--ACTTCCAAAAATTACCATTTTAACCTC-GAACTTCCAAAAATATA-CATTTTTGA
* * ** * *
19177215 CCCTCAAACATCCAAAAATTACCATTTTGCCCTCG-AGTGTCCAAAAAT-TACCATTTTCG-
1 CCCT-GAACTTCCAAAAATTACCATTTTAACCTCGAACT-TCCAAAAATATA-CATTTTTGA
*
19177274 CCCTG-ATTATCCAAAAATTA
1 CCCTGAACT-TCCAAAAATTA
19177294 TCGTTTTATC
Statistics
Matches: 255, Mismatches: 33, Indels: 48
0.76 0.10 0.14
Matches are distributed among these distances:
56 1 0.00
57 23 0.09
58 108 0.42
59 115 0.45
60 7 0.03
61 1 0.00
ACGTcount: A:0.35, C:0.27, G:0.05, T:0.33
Consensus pattern (59 bp):
CCCTGAACTTCCAAAAATTACCATTTTAACCTCGAACTTCCAAAAATATACATTTTTGA
Found at i:19177138 original size:117 final size:118
Alignment explanation
Indices: 19176928--19177242 Score: 317
Period size: 117 Copynumber: 2.7 Consensus size: 118
19176918 AAGGTCCCTC
* * * *
19176928 GAACTTCCAAAAATTATCA-TTTAACCCTCAAACTTCCAAAAA-ATCACATTTTTGCCCCTTAAC
1 GAACTTCCAAAAATTACCATTTTAA-CCTCGAACTTCCAAAAATAT--CATTTTTGACCCTGAAC
* ** *
19176991 TTCCAAAAATTATCATTTTACCTCTGAACTTCCAAAAAATCACATTTTTAC-CCCTA
63 TTCCAAAAATTATCATTTTACCCCCAAACTTCC-AAAAATCACATTTTTACTCCCGA
*
19177047 -AACTTCCAAAAA-TACCATTTTAACCTCGAACTTCCAAAAATATCATTTTTGATCCTGAACTTT
1 GAACTTCCAAAAATTACCATTTTAACCTCGAACTTCCAAAAATATCATTTTTGACCCTGAAC-TT
* * * *
19177110 CTAAAAATTGTCATTTTACCCCCAAACTTCCAAAAATTACATTTTTGCTCCCGA
65 CCAAAAATTATCATTTTACCCCCAAACTTCCAAAAATCACATTTTTACTCCCGA
* * * *
19177164 GTA-TT-CAAAAATTACTATTTT-ACCCCTGAACTTCCAAAAATTATCA-TTTT-ACCCTCAAAC
1 GAACTTCCAAAAATTACCATTTTAACCTC-GAACTTCCAAAAA-TATCATTTTTGACCCT-GAAC
* *
19177224 ATCCAAAAATTACCATTTT
63 TTCCAAAAATTATCATTTT
19177243 GCCCTCGAGT
Statistics
Matches: 165, Mismatches: 22, Indels: 21
0.79 0.11 0.10
Matches are distributed among these distances:
116 58 0.35
117 82 0.50
118 25 0.15
ACGTcount: A:0.37, C:0.26, G:0.03, T:0.34
Consensus pattern (118 bp):
GAACTTCCAAAAATTACCATTTTAACCTCGAACTTCCAAAAATATCATTTTTGACCCTGAACTTC
CAAAAATTATCATTTTACCCCCAAACTTCCAAAAATCACATTTTTACTCCCGA
Found at i:19177278 original size:87 final size:86
Alignment explanation
Indices: 19176923--19177330 Score: 359
Period size: 87 Copynumber: 4.7 Consensus size: 86
19176913 ACCAGAAGGT
* *
19176923 CCCTCGAACTTCCAAAAATTATCATTTAACCCTCAAACTTCCAAAAAAT-CACATTTTTGCCCCT
1 CCCT-GAACTTCCAAAAATTATCATTTTACCCTCAAACTTCCAAAAATTAC-CA-TTTTG-CCCT
** *
19176987 TAACTTCCAAAAATTATCATTTTAC
62 CGACTTCCAAAAATTACCATTTTAC
* * **
19177012 CTCTGAACTTCCAAAAAATCA-CATTTTTACCC-CTAAACTTCCAAAAA-TACCATTTTAACCTC
1 CCCTGAACTTCC-AAAAATTATCA-TTTTACCCTC-AAACTTCCAAAAATTACCATTTTGCCCTC
*
19177074 GAACTTCCAAAAA-TATCATTTTTGA-
63 G-ACTTCCAAAAATTACCA-TTTT-AC
* * * *
19177099 TCCTGAACTTTCTAAAAATTGTCATTTTACCCCCAAACTTCCAAAAATTA-CATTTTTGCTCC-C
1 CCCTGAAC-TTCCAAAAATTATCATTTTACCCTCAAACTTCCAAAAATTACCA-TTTTGC-CCTC
* * *
19177162 GAGTATTCAAAAATTACTATTTTAC
63 GACT-TCCAAAAATTACCATTTTAC
* *
19177187 CCCTGAACTTCCAAAAATTATCATTTTACCCTCAAACATCCAAAAATTACCATTTTGCCCTCGAG
1 CCCTGAACTTCCAAAAATTATCATTTTACCCTCAAACTTCCAAAAATTACCATTTTGCCCTCGAC
19177252 TGTCCAAAAATTACCATTTT-C
66 T-TCCAAAAATTACCATTTTAC
* * ** * *
19177273 GCCCTG-ATTATCCAAAAATTATCGTTTTATCCCTTGAACCTCTAAAAATTACCATTTT
1 -CCCTGAACT-TCCAAAAATTATCATTTTA-CCCTCAAACTTCCAAAAATTACCATTTT
19177331 ACCCCCGGGC
Statistics
Matches: 266, Mismatches: 32, Indels: 43
0.78 0.09 0.13
Matches are distributed among these distances:
86 13 0.05
87 144 0.54
88 73 0.27
89 36 0.14
ACGTcount: A:0.35, C:0.27, G:0.05, T:0.34
Consensus pattern (86 bp):
CCCTGAACTTCCAAAAATTATCATTTTACCCTCAAACTTCCAAAAATTACCATTTTGCCCTCGAC
TTCCAAAAATTACCATTTTAC
Done.