Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002890.1 Hibiscus syriacus cultivar Beakdansim tig00005974_pilon, whole genome shotgun sequence
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: 5046466
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 7 of 21
Found at i:1536983 original size:45 final size:45
Alignment explanation
Indices: 1536932--1537063 Score: 246
Period size: 45 Copynumber: 2.9 Consensus size: 45
1536922 GCCAAGATTA
*
1536932 AAGCGTTTAGTCACACAAGCCTAGAACAATAATTTCAAGGTATTG
1 AAGCGTTTAGTCACACAAGCCTATAACAATAATTTCAAGGTATTG
1536977 AAGCGTTTAGTCACACAAGCCTATAACAATAATTTCAAGGTATTG
1 AAGCGTTTAGTCACACAAGCCTATAACAATAATTTCAAGGTATTG
*
1537022 AAGCATTTAGTCACACAAGCCTATAACAATAATTTCAAGGTA
1 AAGCGTTTAGTCACACAAGCCTATAACAATAATTTCAAGGTA
1537064 AGAATGGAAA
Statistics
Matches: 85, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 85 1.00
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.27
Consensus pattern (45 bp):
AAGCGTTTAGTCACACAAGCCTATAACAATAATTTCAAGGTATTG
Found at i:1539081 original size:34 final size:36
Alignment explanation
Indices: 1539018--1539089 Score: 94
Period size: 34 Copynumber: 2.1 Consensus size: 36
1539008 TATAACCTAC
* * * *
1539018 AAAAATAAAATAATTTAAAATATACTAATAATATTA
1 AAAAATAAAATAATGTAAAATAAAATAATAATAATA
1539054 AAAAAT-AAAT-ATGTAAAATAAAATAATAATAATA
1 AAAAATAAAATAATGTAAAATAAAATAATAATAATA
1539088 AA
1 AA
1539090 CACCAGACAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
34 22 0.69
35 4 0.12
36 6 0.19
ACGTcount: A:0.68, C:0.01, G:0.01, T:0.29
Consensus pattern (36 bp):
AAAAATAAAATAATGTAAAATAAAATAATAATAATA
Found at i:1540863 original size:25 final size:24
Alignment explanation
Indices: 1540792--1540896 Score: 103
Period size: 25 Copynumber: 4.5 Consensus size: 24
1540782 TTTCAAAAAG
1540792 TGAAAAAT-TTT-ATGAAGAAGTTT
1 TGAAAAATGTTTGATGAAGAA-TTT
* * *
1540815 TG-AAAATGTTTTACGAAAGTATTT
1 TGAAAAATGTTTGATG-AAGAATTT
1540839 TGAAAAATGTTTGATGAAGGAATTT
1 TGAAAAATGTTTGATGAA-GAATTT
* *
1540864 TGAAGAATGCTTGATGAAG--TTT
1 TGAAAAATGTTTGATGAAGAATTT
1540886 TGAAAAATGTT
1 TGAAAAATGTT
1540897 GTCTCTTACT
Statistics
Matches: 68, Mismatches: 9, Indels: 11
0.77 0.10 0.12
Matches are distributed among these distances:
22 17 0.25
23 5 0.07
24 10 0.15
25 36 0.53
ACGTcount: A:0.39, C:0.02, G:0.21, T:0.38
Consensus pattern (24 bp):
TGAAAAATGTTTGATGAAGAATTT
Found at i:1541307 original size:21 final size:21
Alignment explanation
Indices: 1541283--1541328 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
1541273 TGAACTGCTC
1541283 GTGTGAAGTTGACTATAACAT
1 GTGTGAAGTTGACTATAACAT
1541304 GTGTGAAGTTGACTATAACAT
1 GTGTGAAGTTGACTATAACAT
1541325 GTGT
1 GTGT
1541329 TCCTCAACTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.30, C:0.09, G:0.26, T:0.35
Consensus pattern (21 bp):
GTGTGAAGTTGACTATAACAT
Found at i:1544015 original size:79 final size:79
Alignment explanation
Indices: 1543833--1544218 Score: 558
Period size: 79 Copynumber: 4.9 Consensus size: 79
1543823 AATGAATAAA
*
1543833 AGAATAATGCATATGAGTGCATTAGTGGCATGAAAGGATGCCTTAGCTGATATGTATAT-GGTAC
1 AGAATAATGCATATGGGTGCATTAGTGGCATGAAAGGATGCCTTAGCTGATATGTATATGGGTAC
*
1543897 ATTATCGGTAGAAC
66 ATTATCGGCAGAAC
* * * *
1543911 ATAATAATGCAAATGGGTGCATTAGTGTCATGAAAGGATGCCTTAGCTGATATATATATGGGTAC
1 AGAATAATGCATATGGGTGCATTAGTGGCATGAAAGGATGCCTTAGCTGATATGTATATGGGTAC
1543976 ATTATCGGCAGAAC
66 ATTATCGGCAGAAC
* * *
1543990 AGAATAATGCATATAGGTGCATTAGTGGCATGAAAGAATGGCTTAGCTGATATGTATATGGGTAC
1 AGAATAATGCATATGGGTGCATTAGTGGCATGAAAGGATGCCTTAGCTGATATGTATATGGGTAC
*
1544055 ATTATTGGCAGAAC
66 ATTATCGGCAGAAC
* *
1544069 ATAATAATTCATATGGGTGCATTAGTGGCATGAAAGGATGCCTTAGCTGATATGTATATGGGTAC
1 AGAATAATGCATATGGGTGCATTAGTGGCATGAAAGGATGCCTTAGCTGATATGTATATGGGTAC
*
1544134 ATTATCGGTAGAAC
66 ATTATCGGCAGAAC
* * * * ** * * * *
1544148 AAAATAATGCATATGGGTGCATTATTGGTATGAAAGAATGCCAAAGTTGAAATGCATATGGGTGC
1 AGAATAATGCATATGGGTGCATTAGTGGCATGAAAGGATGCCTTAGCTGATATGTATATGGGTAC
1544213 ATTATC
66 ATTATC
1544219 AACATAAAAG
Statistics
Matches: 275, Mismatches: 32, Indels: 1
0.89 0.10 0.00
Matches are distributed among these distances:
78 54 0.20
79 221 0.80
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.30
Consensus pattern (79 bp):
AGAATAATGCATATGGGTGCATTAGTGGCATGAAAGGATGCCTTAGCTGATATGTATATGGGTAC
ATTATCGGCAGAAC
Found at i:1548762 original size:94 final size:96
Alignment explanation
Indices: 1548656--1548855 Score: 275
Period size: 94 Copynumber: 2.1 Consensus size: 96
1548646 CAATGTGGTT
*
1548656 TCGATACCATGGTAAGGGTATCGATACCA-ATAAACATCGAATCTAATTTTGGTATCGATA-CCT
1 TCGATACCATGGTAAGGGTATCAATACCAGAT-AACATCGAATCTAATTTTGGTATCGATACCCT
*
1548719 -AGAGGG-GTATCGATATCAT-AGCATAGAGGTA
65 AAGAGGGAGTATCGATACCATAAGC--AGAGGTA
* * *
1548750 TCGATACCATGGTGAGGGTATCAATACCAGGTTACATCGAATCTAATTTTGGTATCGATACCCTA
1 TCGATACCATGGTAAGGGTATCAATACCAGATAACATCGAATCTAATTTTGGTATCGATACCCTA
*
1548815 ATAGGGTAGTATCGATACCATAAGCAGAGGTA
66 AGAGGG-AGTATCGATACCATAAGCAGAGGTA
1548847 TCGATACCA
1 TCGATACCA
1548856 GAGGGCCAGA
Statistics
Matches: 94, Mismatches: 6, Indels: 9
0.86 0.06 0.08
Matches are distributed among these distances:
94 54 0.57
95 4 0.04
96 5 0.05
97 16 0.17
98 12 0.13
99 3 0.03
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (96 bp):
TCGATACCATGGTAAGGGTATCAATACCAGATAACATCGAATCTAATTTTGGTATCGATACCCTA
AGAGGGAGTATCGATACCATAAGCAGAGGTA
Found at i:1549363 original size:79 final size:79
Alignment explanation
Indices: 1549232--1549618 Score: 555
Period size: 79 Copynumber: 4.9 Consensus size: 79
1549222 AATGAATAAA
*
1549232 AGAATAATGCATATGGGTGCATTAGTGGCATGAAAAGATGCCTTAGCTGATATGTATATGGGTAC
1 AGAATAATGCATATGGGTGCATTAGTGGCATGAAAGGATGCCTTAGCTGATATGTATATGGGTAC
*
1549297 ATTATCGACAAAAC
66 ATTATCGACAGAAC
* *
1549311 AGAATAATGCACATGGGTGCATTAGTGGCATGAAAGGATGTCTTAGCTGATATGTATATGGGTAC
1 AGAATAATGCATATGGGTGCATTAGTGGCATGAAAGGATGCCTTAGCTGATATGTATATGGGTAC
*
1549376 ATTATCGGCAGAAC
66 ATTATCGACAGAAC
*
1549390 ATAATAATGCATATGGGTGCATTAGTGGCATGAAAGGATGCCTTAGCTGATATGTATATGGGTAC
1 AGAATAATGCATATGGGTGCATTAGTGGCATGAAAGGATGCCTTAGCTGATATGTATATGGGTAC
1549455 ATTATTCG-CAGAAC
66 ATTA-TCGACAGAAC
* * * *
1549469 ATAATAATACATATGGGTGCATTAGTGGCATGAAAAGATGCCTTAGTTGATATGTATATGGGTAC
1 AGAATAATGCATATGGGTGCATTAGTGGCATGAAAGGATGCCTTAGCTGATATGTATATGGGTAC
*
1549534 ATTATC-AGCAGATC
66 ATTATCGA-CAGAAC
* * ** * * * *
1549548 AGAATAATACATATGGGTGCATTATTGGCATGAAA-GATTGCCAAAGTTGAAATGCATATGGGTT
1 AGAATAATGCATATGGGTGCATTAGTGGCATGAAAGGA-TGCCTTAGCTGATATGTATATGGGTA
1549612 CATTATC
65 CATTATC
1549619 AACATAAAAG
Statistics
Matches: 285, Mismatches: 19, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
78 4 0.01
79 278 0.98
80 3 0.01
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.30
Consensus pattern (79 bp):
AGAATAATGCATATGGGTGCATTAGTGGCATGAAAGGATGCCTTAGCTGATATGTATATGGGTAC
ATTATCGACAGAAC
Found at i:1554293 original size:8 final size:8
Alignment explanation
Indices: 1554280--1554326 Score: 51
Period size: 10 Copynumber: 5.5 Consensus size: 8
1554270 CTGTTGACCC
1554280 GACCCGTT
1 GACCCGTT
1554288 GACCCGTT
1 GACCCGTT
1554296 GA-CCGTT
1 GACCCGTT
1554303 GACCGGCGTT
1 GACC--CGTT
1554313 GACCACTGTT
1 GACC-C-GTT
1554323 GACC
1 GACC
1554327 AAAACTTTGA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
7 7 0.21
8 11 0.32
9 1 0.03
10 15 0.44
ACGTcount: A:0.15, C:0.34, G:0.28, T:0.23
Consensus pattern (8 bp):
GACCCGTT
Found at i:1554303 original size:15 final size:16
Alignment explanation
Indices: 1554283--1554316 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 16
1554273 TTGACCCGAC
1554283 CCGTTGACC-CGTTGA
1 CCGTTGACCGCGTTGA
1554298 CCGTTGACCGGCGTTGA
1 CCGTTGACC-GCGTTGA
1554315 CC
1 CC
1554317 ACTGTTGACC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
17 8 0.47
ACGTcount: A:0.12, C:0.35, G:0.29, T:0.24
Consensus pattern (16 bp):
CCGTTGACCGCGTTGA
Found at i:1556867 original size:24 final size:24
Alignment explanation
Indices: 1556840--1556907 Score: 93
Period size: 24 Copynumber: 2.8 Consensus size: 24
1556830 TTCGATTTGA
* *
1556840 ATTCTGATCTGATA-TCTGACTTGG
1 ATTCTGATATGATACT-TGACCTGG
1556864 ATTCTGATATGATACTTGACCTGG
1 ATTCTGATATGATACTTGACCTGG
*
1556888 ATTTTGATATGATACTTGAC
1 ATTCTGATATGATACTTGAC
1556908 ATGAATTATG
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
24 39 0.98
25 1 0.03
ACGTcount: A:0.25, C:0.15, G:0.19, T:0.41
Consensus pattern (24 bp):
ATTCTGATATGATACTTGACCTGG
Found at i:1556924 original size:24 final size:24
Alignment explanation
Indices: 1556837--1556917 Score: 74
Period size: 24 Copynumber: 3.4 Consensus size: 24
1556827 ATTTTCGATT
* * *
1556837 TGAATTCTGATCTGATA-TCTGACT
1 TGAATTATGATATGATACT-TGACA
* * *
1556861 TGGATTCTGATATGATACTTGACC
1 TGAATTATGATATGATACTTGACA
* *
1556885 TGGATTTTGATATGATACTTGACA
1 TGAATTATGATATGATACTTGACA
1556909 TGAATTATG
1 TGAATTATG
1556918 TTTTGATTTT
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
24 48 0.98
25 1 0.02
ACGTcount: A:0.27, C:0.12, G:0.20, T:0.41
Consensus pattern (24 bp):
TGAATTATGATATGATACTTGACA
Found at i:1557087 original size:43 final size:43
Alignment explanation
Indices: 1557026--1557120 Score: 172
Period size: 43 Copynumber: 2.2 Consensus size: 43
1557016 GGGCCTCACT
*
1557026 TGGTGTGTTGGTAGGTGTATGGTTCTGGGGAACCTACACATTA
1 TGGTGTGTTGGTAGGTGTATGGTTCTGGGAAACCTACACATTA
*
1557069 TGGTGTGTTGGTGGGTGTATGGTTCTGGGAAACCTACACATTA
1 TGGTGTGTTGGTAGGTGTATGGTTCTGGGAAACCTACACATTA
1557112 TGGTGTGTT
1 TGGTGTGTT
1557121 CGGTTGGAGG
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 50 1.00
ACGTcount: A:0.17, C:0.11, G:0.36, T:0.37
Consensus pattern (43 bp):
TGGTGTGTTGGTAGGTGTATGGTTCTGGGAAACCTACACATTA
Found at i:1559254 original size:13 final size:13
Alignment explanation
Indices: 1559224--1559284 Score: 50
Period size: 13 Copynumber: 4.3 Consensus size: 13
1559214 GTCATAACCC
*
1559224 GACCCGACCTGTT
1 GACCCGACCCGTT
*
1559237 TACCCGACCCGTT
1 GACCCGACCCGTT
*
1559250 GACCCAACCCGACTTGTT
1 GACCCGA-CC--C--GTT
1559268 GACCCGACCCGTT
1 GACCCGACCCGTT
1559281 GACC
1 GACC
1559285 GTTGACCGGC
Statistics
Matches: 38, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
13 23 0.61
14 2 0.05
15 1 0.03
16 1 0.03
17 2 0.05
18 9 0.24
ACGTcount: A:0.18, C:0.43, G:0.20, T:0.20
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:1559259 original size:18 final size:18
Alignment explanation
Indices: 1559238--1559278 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
1559228 CGACCTGTTT
1559238 ACCCGACCCGTTGACCCA
1 ACCCGACCCGTTGACCCA
** *
1559256 ACCCGACTTGTTGACCCG
1 ACCCGACCCGTTGACCCA
1559274 ACCCG
1 ACCCG
1559279 TTGACCGTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.20, C:0.46, G:0.20, T:0.15
Consensus pattern (18 bp):
ACCCGACCCGTTGACCCA
Found at i:1559260 original size:31 final size:31
Alignment explanation
Indices: 1559220--1559284 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
1559210 ACCGGTCATA
* *
1559220 ACCCGACCCGACCTGTTTACCCGACCCGTTG
1 ACCCAACCCGACCTGTTGACCCGACCCGTTG
*
1559251 ACCCAACCCGACTTGTTGACCCGACCCGTTG
1 ACCCAACCCGACCTGTTGACCCGACCCGTTG
1559282 ACC
1 ACC
1559285 GTTGACCGGC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.18, C:0.45, G:0.18, T:0.18
Consensus pattern (31 bp):
ACCCAACCCGACCTGTTGACCCGACCCGTTG
Found at i:1561845 original size:24 final size:24
Alignment explanation
Indices: 1561818--1561885 Score: 93
Period size: 24 Copynumber: 2.8 Consensus size: 24
1561808 TTTGATTTAA
* *
1561818 ATTCTGATCTGATA-TCTGACTTGG
1 ATTCTGATATGATACT-TGACCTGG
1561842 ATTCTGATATGATACTTGACCTGG
1 ATTCTGATATGATACTTGACCTGG
*
1561866 ATTTTGATATGATACTTGAC
1 ATTCTGATATGATACTTGAC
1561886 ATGAATTATG
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
24 39 0.98
25 1 0.03
ACGTcount: A:0.25, C:0.15, G:0.19, T:0.41
Consensus pattern (24 bp):
ATTCTGATATGATACTTGACCTGG
Found at i:1561902 original size:24 final size:24
Alignment explanation
Indices: 1561846--1561895 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
1561836 ACTTGGATTC
* * *
1561846 TGATATGATACTTGACCTGGATTT
1 TGATATGATACTTGACATGAATTA
1561870 TGATATGATACTTGACATGAATTA
1 TGATATGATACTTGACATGAATTA
1561894 TG
1 TG
1561896 TTTTGATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (24 bp):
TGATATGATACTTGACATGAATTA
Found at i:1562945 original size:11 final size:11
Alignment explanation
Indices: 1562929--1562954 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
1562919 AAAATTTTGG
1562929 ATTTTTATTTA
1 ATTTTTATTTA
1562940 ATTTTTATTTA
1 ATTTTTATTTA
1562951 ATTT
1 ATTT
1562955 GGATTTGGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
ATTTTTATTTA
Found at i:1568361 original size:21 final size:23
Alignment explanation
Indices: 1568319--1568361 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
1568309 AAAATAAATT
*
1568319 AATAAAAATAATATAAGGAATAA
1 AATAAAAATAATATAAGAAATAA
1568342 AATAAAAA-AA-ATAAGAAATA
1 AATAAAAATAATATAAGAAATA
1568362 TGGACTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 9 0.47
22 2 0.11
23 8 0.42
ACGTcount: A:0.74, C:0.00, G:0.07, T:0.19
Consensus pattern (23 bp):
AATAAAAATAATATAAGAAATAA
Found at i:1575399 original size:3 final size:3
Alignment explanation
Indices: 1575391--1575416 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
1575381 TAAAGTAAAG
1575391 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
1575417 AATACACCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:1581220 original size:22 final size:20
Alignment explanation
Indices: 1581192--1581240 Score: 73
Period size: 22 Copynumber: 2.4 Consensus size: 20
1581182 AACTATTTTT
1581192 TTGGTCAAAGTCAAAGTCAAC
1 TTGGTCAAAGTC-AAGTCAAC
1581213 ATTGGTCAAAGTCAAGTCAAC
1 -TTGGTCAAAGTCAAGTCAAC
1581234 -TGGTCAA
1 TTGGTCAA
1581241 CGGGTTTGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.26
21 8 0.30
22 12 0.44
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.24
Consensus pattern (20 bp):
TTGGTCAAAGTCAAGTCAAC
Found at i:1582750 original size:23 final size:24
Alignment explanation
Indices: 1582720--1582764 Score: 83
Period size: 23 Copynumber: 1.9 Consensus size: 24
1582710 CAACAGGTTC
1582720 ACTCAGTCTGAGTT-ACTCAGTTA
1 ACTCAGTCTGAGTTAACTCAGTTA
1582743 ACTCAGTCTGAGTTAACTCAGT
1 ACTCAGTCTGAGTTAACTCAGT
1582765 ATCTAGAAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
23 14 0.67
24 7 0.33
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (24 bp):
ACTCAGTCTGAGTTAACTCAGTTA
Found at i:1584733 original size:31 final size:30
Alignment explanation
Indices: 1584672--1584733 Score: 70
Period size: 31 Copynumber: 2.0 Consensus size: 30
1584662 AACCAAGAAT
* *
1584672 GTAGCTGACACTAGCTGGAAGGTAGTTGAG
1 GTAGCTGACACTAGCTGGAAGATAGCTGAG
* * *
1584702 GTAGCTGAACAGTAGCTTGATGATAGCTGAG
1 GTAGCTG-ACACTAGCTGGAAGATAGCTGAG
1584733 G
1 G
1584734 ACTTAAGGCA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
30 7 0.27
31 19 0.73
ACGTcount: A:0.27, C:0.13, G:0.35, T:0.24
Consensus pattern (30 bp):
GTAGCTGACACTAGCTGGAAGATAGCTGAG
Found at i:1594446 original size:81 final size:81
Alignment explanation
Indices: 1594274--1594603 Score: 446
Period size: 81 Copynumber: 4.1 Consensus size: 81
1594264 TAACCTTCCA
* * * * *
1594274 TCTTTTACTGAACGGTATTTAACCGTTCATCTAACTGGCAT-ATTGACACCTTTCTACCAGTTGC
1 TCTTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGCATAATTGACACATTTCTGCCAATTGC
** *
1594338 ACAGTTAGGTTATTAT
66 ACAGTTAGGCCAATAT
* *
1594354 TCTTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGTATAATTAACACATTTCTGCCAATTGC
1 TCTTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGCATAATTGACACATTTCTGCCAATTGC
*
1594419 ACAATTAGGCCAATAT
66 ACAGTTAGGCCAATAT
* * *
1594435 TATTTTACTCAACGGTCTTTATCCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAATTGC
1 TCTTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGCATAATTGACACATTTCTGCCAATTGC
*
1594500 ATAGTTAGGCCAATAT
66 ACAGTTAGGCCAATAT
** ** *
1594516 TCTTTTACTCAACGGTCTTTAACATTTCATCTAACTGGCATAATTGACACATTTCTATCAGTTGC
1 TCTTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGCATAATTGACACATTTCTGCCAATTGC
* * *
1594581 ATAGTTAGGCCATTAA
66 ACAGTTAGGCCAATAT
1594597 TCTTTTA
1 TCTTTTA
1594604 TTTTGGACTA
Statistics
Matches: 221, Mismatches: 28, Indels: 1
0.88 0.11 0.00
Matches are distributed among these distances:
80 38 0.17
81 183 0.83
ACGTcount: A:0.27, C:0.22, G:0.13, T:0.38
Consensus pattern (81 bp):
TCTTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGCATAATTGACACATTTCTGCCAATTGC
ACAGTTAGGCCAATAT
Found at i:1594842 original size:54 final size:54
Alignment explanation
Indices: 1594745--1595425 Score: 749
Period size: 54 Copynumber: 12.5 Consensus size: 54
1594735 ATTAATATGA
* * * * ***
1594745 ACACCTAGTGCCTATACAG-TAGTTCATCAACTCATGATGAATTCTATGGGTTGC
1 ACACTTAGTGCCTGTACGGTTA-TTCATCAACTCATGATGAATTCTGTGAAATGC
* * **
1594799 ACACATTA-TGCCTGTACGGTTATCCATCAACTTATGACAAATTCTGTGAAATGC
1 ACAC-TTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCTGTGAAATGC
* * * *
1594853 ACACTTAGTGTCTGTACGGTTATTCATCAACTCATTATAAATTATGTGAAATGC
1 ACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCTGTGAAATGC
* * ** *
1594907 ACACTTAGTGCTTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTTC
1 ACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCTGT-GAAATGC
* * * *
1594962 ACACATAGTGCTTGTACGGTTATTCATCAACTCATGATGAATTCCGTGAAATAC
1 ACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCTGTGAAATGC
* * *
1595016 ACACTTAGTGCCTGTATGGTTATTCATCAACTCGTGATGAATTATGTGAAATGC
1 ACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCTGTGAAATGC
* **
1595070 ACACTTAGTGCTTGTACGGTTATTCATCAACTCATGATGAATTCTGTGGATTTGC
1 ACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCTGT-GAAATGC
* *
1595125 ACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGAAATGC
1 ACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCTGTGAAATGC
* * * *
1595179 ACACTTAGTGCATGTACTGTTATTCATCAACTCATGATGAATTCCGTGAAATAC
1 ACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCTGTGAAATGC
* * ** *
1595233 ATACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTTC
1 ACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCTGT-GAAATGC
* * * **
1595288 ACACATAGTGCATGTACGGTTATTCATCAACTCATAATGAATT-TCGTGGATTTGC
1 ACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCT-GT-GAAATGC
* * * * * * **
1595343 ACACATAATGCATGCACGGTTATTCATCAACTCATAATGAATTATGTGGATTTGC
1 ACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCTGT-GAAATGC
* *
1595398 ACACATAGTG-CTGAAACGGTTATTCATC
1 ACACTTAGTGCCTG-TACGGTTATTCATC
1595426 CATATAGGAT
Statistics
Matches: 549, Mismatches: 69, Indels: 17
0.86 0.11 0.03
Matches are distributed among these distances:
53 3 0.01
54 317 0.58
55 228 0.42
56 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (54 bp):
ACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCTGTGAAATGC
Found at i:1594995 original size:109 final size:108
Alignment explanation
Indices: 1594767--1595425 Score: 759
Period size: 109 Copynumber: 6.1 Consensus size: 108
1594757 TATACAGTAG
* *** *
1594767 TTCATCAACTCATGATGAATTCTATGGGTTGCACACATTA-TGCCTGTACGGTTATCCATCAACT
1 TTCATCAACTCATGATGAATTCTGTGAAATGCACAC-TTAGTGCCTGTACGGTTATTCATCAACT
* ** * *
1594831 TATGACAAATTCTGTGAAATGCACACTTAGTG-TCTGTACGGTTA
65 CATGATGAATTCCGTGAAATGCACACATAGTGCT-TGTACGGTTA
* * * *
1594875 TTCATCAACTCATTATAAATTATGTGAAATGCACACTTAGTGCTTGTACGGTTATTCATCAACTC
1 TTCATCAACTCATGATGAATTCTGTGAAATGCACACTTAGTGCCTGTACGGTTATTCATCAACTC
** *
1594940 ATGATGAATTCCGTGGATTTTCACACATAGTGCTTGTACGGTTA
66 ATGATGAATTCCGT-GAAATGCACACATAGTGCTTGTACGGTTA
* * *
1594984 TTCATCAACTCATGATGAATTCCGTGAAATACACACTTAGTGCCTGTATGGTTATTCATCAACTC
1 TTCATCAACTCATGATGAATTCTGTGAAATGCACACTTAGTGCCTGTACGGTTATTCATCAACTC
* ** *
1595049 GTGATGAATTATGTGAAATGCACACTTAGTGCTTGTACGGTTA
66 ATGATGAATTCCGTGAAATGCACACATAGTGCTTGTACGGTTA
** *
1595092 TTCATCAACTCATGATGAATTCTGTGGATTTGCACACATAGTGCCTGTACGGTTATTCATCAACT
1 TTCATCAACTCATGATGAATTCTGT-GAAATGCACACTTAGTGCCTGTACGGTTATTCATCAACT
* * *
1595157 CATGATGAATTCCGTGAAATGCACACTTAGTGCATGTACTGTTA
65 CATGATGAATTCCGTGAAATGCACACATAGTGCTTGTACGGTTA
* * *
1595201 TTCATCAACTCATGATGAATTCCGTGAAATACATACTTAGTGCCTGTACGGTTATTCATCAACTC
1 TTCATCAACTCATGATGAATTCTGTGAAATGCACACTTAGTGCCTGTACGGTTATTCATCAACTC
** * *
1595266 ATGATGAATTCCGTGGATTTTCACACATAGTGCATGTACGGTTA
66 ATGATGAATTCCGT-GAAATGCACACATAGTGCTTGTACGGTTA
* ** * * * *
1595310 TTCATCAACTCATAATGAATT-TCGTGGATTTGCACACATAATGCATGCACGGTTATTCATCAAC
1 TTCATCAACTCATGATGAATTCT-GT-GAAATGCACACTTAGTGCCTGTACGGTTATTCATCAAC
* ** ** *
1595374 TCATAATGAATTATGTGGATTTGCACACATAGTGC-TGAAACGGTTA
64 TCATGATGAATTCCGT-GAAATGCACACATAGTGCTTG-TACGGTTA
1595420 TTCATC
1 TTCATC
1595426 CATATAGGAT
Statistics
Matches: 475, Mismatches: 68, Indels: 14
0.85 0.12 0.03
Matches are distributed among these distances:
107 3 0.01
108 160 0.34
109 237 0.50
110 75 0.16
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.34
Consensus pattern (108 bp):
TTCATCAACTCATGATGAATTCTGTGAAATGCACACTTAGTGCCTGTACGGTTATTCATCAACTC
ATGATGAATTCCGTGAAATGCACACATAGTGCTTGTACGGTTA
Found at i:1595039 original size:163 final size:163
Alignment explanation
Indices: 1594767--1595425 Score: 912
Period size: 163 Copynumber: 4.0 Consensus size: 163
1594757 TATACAGTAG
** * *
1594767 TTCATCAACTCATGATGAATTCTATGG-GTTGCACACATTA-TGCCTGTACGGTTATCCATCAAC
1 TTCATCAACTCATGATGAATTCCGTGGATTTGCACACA-TAGTGCCTGTACGGTTATTCATCAAC
* ** * * *
1594830 TTATGACAAATTCTGTGAAATGCACACTTAGTGTC-TGTACGGTTATTCATCAACTCATTATAAA
65 TCATGATGAATTCCGTGAAATGCACACTTAGTG-CATGTACGGTTATTCATCAACTCATGATGAA
1594894 TTATGTGAAATGCACACTTAGTGCTTGTACGGTTA
129 TTATGTGAAATGCACACTTAGTGCTTGTACGGTTA
* *
1594929 TTCATCAACTCATGATGAATTCCGTGGATTTTCACACATAGTGCTTGTACGGTTATTCATCAACT
1 TTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCCTGTACGGTTATTCATCAACT
* * * *
1594994 CATGATGAATTCCGTGAAATACACACTTAGTGCCTGTATGGTTATTCATCAACTCGTGATGAATT
66 CATGATGAATTCCGTGAAATGCACACTTAGTGCATGTACGGTTATTCATCAACTCATGATGAATT
1595059 ATGTGAAATGCACACTTAGTGCTTGTACGGTTA
131 ATGTGAAATGCACACTTAGTGCTTGTACGGTTA
*
1595092 TTCATCAACTCATGATGAATTCTGTGGATTTGCACACATAGTGCCTGTACGGTTATTCATCAACT
1 TTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCCTGTACGGTTATTCATCAACT
*
1595157 CATGATGAATTCCGTGAAATGCACACTTAGTGCATGTACTGTTATTCATCAACTCATGATGAATT
66 CATGATGAATTCCGTGAAATGCACACTTAGTGCATGTACGGTTATTCATCAACTCATGATGAATT
** * * *
1595222 CCGTGAAATACATACTTAGTGCCTGTACGGTTA
131 ATGTGAAATGCACACTTAGTGCTTGTACGGTTA
* *
1595255 TTCATCAACTCATGATGAATTCCGTGGATTTTCACACATAGTGCATGTACGGTTATTCATCAACT
1 TTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCCTGTACGGTTATTCATCAACT
* * ** * * * *
1595320 CATAATGAATTTCGTGGATTTGCACACATAATGCATGCACGGTTATTCATCAACTCATAATGAAT
66 CATGATGAATTCCGT-GAAATGCACACTTAGTGCATGTACGGTTATTCATCAACTCATGATGAAT
** * *
1595385 TATGTGGATTTGCACACATAGTGC-TGAAACGGTTA
130 TATGT-GAAATGCACACTTAGTGCTTG-TACGGTTA
1595420 TTCATC
1 TTCATC
1595426 CATATAGGAT
Statistics
Matches: 443, Mismatches: 48, Indels: 9
0.89 0.10 0.02
Matches are distributed among these distances:
162 28 0.06
163 342 0.77
164 47 0.11
165 26 0.06
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.34
Consensus pattern (163 bp):
TTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCCTGTACGGTTATTCATCAACT
CATGATGAATTCCGTGAAATGCACACTTAGTGCATGTACGGTTATTCATCAACTCATGATGAATT
ATGTGAAATGCACACTTAGTGCTTGTACGGTTA
Found at i:1595939 original size:95 final size:95
Alignment explanation
Indices: 1595776--1595994 Score: 275
Period size: 95 Copynumber: 2.3 Consensus size: 95
1595766 AAGCTCAATA
* * *
1595776 GTATCGATACTAC-TACCCTGGTATCGATACTT--CTATACTATGGTATTGATACCCCCTTCCAG
1 GTATCGATAC-CCTTACCATGGTATCGATA-TTAAC-ATACTATGGTACTGATACCCCCTTCCAG
* * *
1595838 TATCGATACCAATTTCAGATTTGATGTTGCCTG
63 TATCGATACCAATTTCAAATTCGATGTGGCCTG
* * * *
1595871 GTATCGATGCTCTTACCATGGTTTCGATATTAACATACTATGGTACTGATGCCCCCTTCC-GATA
1 GTATCGATACCCTTACCATGGTATCGATATTAACATACTATGGTACTGATACCCCCTTCCAG-TA
*
1595935 TCGATACCAATTTTAAATTCGATGTGGCCTG
65 TCGATACCAATTTCAAATTCGATGTGGCCTG
1595966 GTATCGATACCCTTACCATGGTATCGATA
1 GTATCGATACCCTTACCATGGTATCGATA
1595995 CTACTACTTC
Statistics
Matches: 107, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
94 4 0.04
95 102 0.95
96 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.35
Consensus pattern (95 bp):
GTATCGATACCCTTACCATGGTATCGATATTAACATACTATGGTACTGATACCCCCTTCCAGTAT
CGATACCAATTTCAAATTCGATGTGGCCTG
Found at i:1597107 original size:19 final size:17
Alignment explanation
Indices: 1597071--1597105 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
1597061 CGATAGTAAC
1597071 ATATCAGTGGTTGAGAG
1 ATATCAGTGGTTGAGAG
1597088 ATATCAGTGGTTGAGAG
1 ATATCAGTGGTTGAGAG
1597105 A
1 A
1597106 GACAATTTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.31, C:0.06, G:0.34, T:0.29
Consensus pattern (17 bp):
ATATCAGTGGTTGAGAG
Found at i:1600987 original size:21 final size:20
Alignment explanation
Indices: 1600923--1600995 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
1600913 TTTAGCAAGG
1600923 GTATCGATACTATAGGGTTA
1 GTATCGATACTATAGGGTTA
*
1600943 GTACCGATACTATAGGGTTA
1 GTATCGATACTATAGGGTTA
* *
1600963 GTATCGATACTAAAGGGCATA
1 GTATCGATACTATAGGG-TTA
*
1600984 GTATCAATACTA
1 GTATCGATACTA
1600996 GTGTGATGTT
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
20 34 0.72
21 13 0.28
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.30
Consensus pattern (20 bp):
GTATCGATACTATAGGGTTA
Found at i:1611181 original size:54 final size:54
Alignment explanation
Indices: 1611099--1611583 Score: 641
Period size: 54 Copynumber: 9.0 Consensus size: 54
1611089 ACCGAATGGA
*
1611099 CATTGTGTGTGCAACTTAAGAAATTCATAATAAGTTTGTGAATTTCCGTATTGG
1 CATTGTGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGG
*
1611153 CATTGTGTGTGCAACTTAAGAAATTCATAATAAGTTTATTAATTTCCGTATTGG
1 CATTGTGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGG
* * *
1611207 CACTT-TGTGTGCAACTTAAGAAATTTATAATAGGTTTATGAATTTCTGTATTGG
1 CA-TTGTGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGG
* * *
1611261 CACTT-TGTGTGCAACTTAAGAAATTCATATTAGGTTTATGAATTTTCGTATTGG
1 CA-TTGTGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGG
* * * *
1611315 CGTTGTGTGTGCAACTTTAGAAATTCATAATAAGTTTAAGAATTTTCGTATTGG
1 CATTGTGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGG
* * *
1611369 CAATGTGTGTGCAACATAAGAAATTCATAATGAGTTTATGAATTTCCGTATTGG
1 CATTGTGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGG
** *
1611423 CCCTGTGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTCCATATTGG
1 CATTGTGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGG
* * * *
1611477 CACTGTGTGTGCAACTTAAGAAATTCTTAATGAGTTTATGAATTTTCGTATTGG
1 CATTGTGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGG
* * * *** * * * *
1611531 CACTATATGTGCAACCCCATATAATTTATAATGAGTTTATGAATTACCGTATT
1 CATTGTGTGTGCAACTTAAGA-AATTCATAATAAGTTTATGAATTTCCGTATT
1611584 AGCACTACGT
Statistics
Matches: 386, Mismatches: 42, Indels: 5
0.89 0.10 0.01
Matches are distributed among these distances:
53 2 0.01
54 355 0.92
55 29 0.08
ACGTcount: A:0.31, C:0.12, G:0.18, T:0.40
Consensus pattern (54 bp):
CATTGTGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGG
Found at i:1611599 original size:55 final size:54
Alignment explanation
Indices: 1611504--1611618 Score: 140
Period size: 55 Copynumber: 2.1 Consensus size: 54
1611494 AAGAAATTCT
** * * * ** *
1611504 TAATGAGTTTATGAATTTTCGTATTGGCACTATATGTGCAACCCCATATAATTTA
1 TAATGAGTTTATGAATTACCGTATTAGCACTACATATGCAA-AACATAGAATTTA
*
1611559 TAATGAGTTTATGAATTACCGTATTAGCACTACGTATGCAAAACATAGAATTTA
1 TAATGAGTTTATGAATTACCGTATTAGCACTACATATGCAAAACATAGAATTTA
1611613 TAATGA
1 TAATGA
1611619 ATTGTAATAG
Statistics
Matches: 51, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
54 16 0.31
55 35 0.69
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.37
Consensus pattern (54 bp):
TAATGAGTTTATGAATTACCGTATTAGCACTACATATGCAAAACATAGAATTTA
Found at i:1619027 original size:21 final size:21
Alignment explanation
Indices: 1618985--1619023 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
1618975 TATCAAACTC
*
1618985 TTTGTTGAAGCCGTGAAATCT
1 TTTGTTGAAGCCATGAAATCT
*
1619006 TTTGTTGAGGCCAT-AAAT
1 TTTGTTGAAGCCATGAAAT
1619024 TCTTACAATG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.38
Consensus pattern (21 bp):
TTTGTTGAAGCCATGAAATCT
Found at i:1624466 original size:20 final size:20
Alignment explanation
Indices: 1624401--1624472 Score: 60
Period size: 20 Copynumber: 3.6 Consensus size: 20
1624391 TTCTAGACTA
*
1624401 AAAGTATCGATATTGTTCTT
1 AAAGTATCGATATTGTTCAT
**
1624421 ACAA-TATC-A-ATACTTCAT
1 A-AAGTATCGATATTGTTCAT
1624439 GAACAGTATCGATATTGTTCAT
1 -AA-AGTATCGATATTGTTCAT
*
1624461 AAAGTACCGATA
1 AAAGTATCGATA
1624473 CCAAAGGTAA
Statistics
Matches: 40, Mismatches: 6, Indels: 12
0.69 0.10 0.21
Matches are distributed among these distances:
18 7 0.17
19 3 0.08
20 18 0.45
21 5 0.12
22 7 0.17
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (20 bp):
AAAGTATCGATATTGTTCAT
Found at i:1630079 original size:31 final size:31
Alignment explanation
Indices: 1630039--1630098 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
1630029 ACGTGTATAA
* *
1630039 TGAAATGTGACTGTGTGAACAATATGTTTTT
1 TGAAATGTGACTATCTGAACAATATGTTTTT
*
1630070 TGAATTGTGACTATCTGAACAATATGTTT
1 TGAAATGTGACTATCTGAACAATATGTTT
1630099 CCTAAACTAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.42
Consensus pattern (31 bp):
TGAAATGTGACTATCTGAACAATATGTTTTT
Found at i:1630119 original size:31 final size:31
Alignment explanation
Indices: 1630084--1630154 Score: 115
Period size: 31 Copynumber: 2.3 Consensus size: 31
1630074 TTGTGACTAT
1630084 CTGAACAATATGTTTCCTAAACTACAATTGC
1 CTGAACAATATGTTTCCTAAACTACAATTGC
* * *
1630115 CTGAATAATATGTTTCCTAAACTATAATTGT
1 CTGAACAATATGTTTCCTAAACTACAATTGC
1630146 CTGAACAAT
1 CTGAACAAT
1630155 GTGTGTTTTG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.35
Consensus pattern (31 bp):
CTGAACAATATGTTTCCTAAACTACAATTGC
Found at i:1631280 original size:81 final size:81
Alignment explanation
Indices: 1631186--1631960 Score: 1183
Period size: 81 Copynumber: 9.6 Consensus size: 81
1631176 ACATATATAG
* * * * * *
1631186 CCTTTCATCTAACTTGCATGATTGACAACTTCCTGTCAAATGCACAGCTAGGCCATTAATCTATT
1 CCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTT
1631251 ACTCAAAGGTATTTAA
66 ACTCAAAGGTATTTAA
* * *
1631267 CCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATACAGAGCTAGGTCATTAATCTTTT
1 CCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTT
1631332 ACTCAAAGGTATTTAA
66 ACTCAAAGGTATTTAA
* *
1631348 CCTTTCATCTAACTGACATAATTGACATCTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTT
1 CCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTT
1631413 ACTCAAAGGTATTTAA
66 ACTCAAAGGTATTTAA
* * * *
1631429 CCTTTCATCTAACTAGCATAATTAACACCTTTCTACCAAATGCACAGCTATGCCATTAATCTTTT
1 CCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTT
*
1631494 ACTTAAAGGTATTTAA
66 ACTCAAAGGTATTTAA
* * * * *
1631510 CCTTTCATCTAACTGGCATAATTTACACCTTTCTGCCAAATACATAGTTATGCCATTAATCTTTT
1 CCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTT
*
1631575 ACACAAAGGTATTTAA
66 ACTCAAAGGTATTTAA
* * * *
1631591 -CTTTCATCTAACTGGCATAATTGACACCTTTCTACCAAGTGCACAACTAGGCCATTATTCTTTT
1 CCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTT
1631655 ACTCAAAGGTATTTAA
66 ACTCAAAGGTATTTAA
* * *
1631671 CTTTTCATCTAACTAGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAATATTTT
1 CCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTT
1631736 ACTCAAAGGTATTTAA
66 ACTCAAAGGTATTTAA
* * *
1631752 CCTTTCATCTAACTGGCATAATTGACACATTTCTACCAAATGCAAAGCTAGGCCATTAATCTTTT
1 CCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTT
1631817 ACTCAAAGGTATTTAA
66 ACTCAAAGGTATTTAA
* * * *
1631833 CATTTCATCTAACTGGCATAATTGACACATTTCTACCAAATGCATAGCTAGGCCATTAATCTTTT
1 CCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTT
1631898 ACTCAAAGGTATTTAA
66 ACTCAAAGGTATTTAA
* * * *
1631914 CATTTCATCTAACTGGCATAATTGAGACTTTTCTACCAAATGCACAG
1 CCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAG
1631961 GTCATTAATC
Statistics
Matches: 636, Mismatches: 57, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
80 70 0.11
81 566 0.89
ACGTcount: A:0.32, C:0.23, G:0.11, T:0.35
Consensus pattern (81 bp):
CCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTT
ACTCAAAGGTATTTAA
Found at i:1631936 original size:404 final size:404
Alignment explanation
Indices: 1631187--1631954 Score: 1241
Period size: 404 Copynumber: 1.9 Consensus size: 404
1631177 CATATATAGC
* * ** *
1631187 CTTTCATCTAACTTGCATGATTGACAACTTCCTGTCAAATGCACAGCTAGGCCATTAATCTATTA
1 CTTTCATCTAACTGGCATAATTGACAACTTCCTACCAAATGCACAACTAGGCCATTAATCTATTA
* *
1631252 CTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATACAGAGCTA
66 CTCAAAGGTATTTAACCTTTCATCTAACTAGCATAATTGACACCTTTCTGCCAAATACACAGCTA
* *
1631317 GGTCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGACATAATTGACATCTTTCT
131 GGCCATTAATATTTTACTCAAAGGTATTTAACCTTTCATCTAACTGACATAATTGACATCTTTCT
* * *
1631382 GCCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTAGCA
196 ACCAAATGCAAAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACATTTCATCTAACTAGCA
* * * *
1631447 TAATTAACACCTTTCTACCAAATGCACAGCTATGCCATTAATCTTTTACTTAAAGGTATTTAACC
261 TAATTAACACATTTCTACCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACA
* *
1631512 TTTCATCTAACTGGCATAATTTACACCTTTCTGCCAAATACATAGTTATGCCATTAATCTTTTAC
326 TTTCATCTAACTGGCATAATTGACACCTTTCTACCAAATACATAGTTATGCCATTAATCTTTTAC
1631577 ACAAAGGTATTTAA
391 ACAAAGGTATTTAA
* * * * *
1631591 CTTTCATCTAACTGGCATAATTGACACCTTTCTACCAAGTGCACAACTAGGCCATTATTCTTTTA
1 CTTTCATCTAACTGGCATAATTGACAACTTCCTACCAAATGCACAACTAGGCCATTAATCTATTA
* *
1631656 CTCAAAGGTATTTAACTTTTCATCTAACTAGCATAATTGACACCTTTCTGCCAAATGCACAGCTA
66 CTCAAAGGTATTTAACCTTTCATCTAACTAGCATAATTGACACCTTTCTGCCAAATACACAGCTA
*
1631721 GGCCATTAATATTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACA-CATTTC
131 GGCCATTAATATTTTACTCAAAGGTATTTAACCTTTCATCTAACTGACATAATTGACATC-TTTC
*
1631785 TACCAAATGCAAAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACATTTCATCTAACTGGC
195 TACCAAATGCAAAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACATTTCATCTAACTAGC
* *
1631850 ATAATTGACACATTTCTACCAAATGCATAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAAC
260 ATAATTAACACATTTCTACCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAAC
* *
1631915 ATTTCATCTAACTGGCATAATTGAGACTTTTCTACCAAAT
325 ATTTCATCTAACTGGCATAATTGACACCTTTCTACCAAAT
1631955 GCACAGGTCA
Statistics
Matches: 332, Mismatches: 31, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
403 1 0.00
404 331 1.00
ACGTcount: A:0.32, C:0.23, G:0.11, T:0.35
Consensus pattern (404 bp):
CTTTCATCTAACTGGCATAATTGACAACTTCCTACCAAATGCACAACTAGGCCATTAATCTATTA
CTCAAAGGTATTTAACCTTTCATCTAACTAGCATAATTGACACCTTTCTGCCAAATACACAGCTA
GGCCATTAATATTTTACTCAAAGGTATTTAACCTTTCATCTAACTGACATAATTGACATCTTTCT
ACCAAATGCAAAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACATTTCATCTAACTAGCA
TAATTAACACATTTCTACCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACA
TTTCATCTAACTGGCATAATTGACACCTTTCTACCAAATACATAGTTATGCCATTAATCTTTTAC
ACAAAGGTATTTAA
Found at i:1632187 original size:55 final size:55
Alignment explanation
Indices: 1632128--1632385 Score: 435
Period size: 55 Copynumber: 4.7 Consensus size: 55
1632118 ACCGATACGG
*
1632128 AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCTTACAA
1 AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACAA
* ***
1632183 AAATTCATAAACTTATTATGAAATTCTTAGTTTTGCACACAAAGTGCCCATATGG
1 AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACAA
* *
1632238 AAATTCATAAACTTATTATGAACTTCTTAGTTTTGCACACAAAGTGCCCATACAG
1 AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACAA
* *
1632293 AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTTCCCATACGA
1 AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACAA
1632348 AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCAC
1 AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCAC
1632386 GCATAGTGTC
Statistics
Matches: 191, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 191 1.00
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.36
Consensus pattern (55 bp):
AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACAA
Found at i:1635627 original size:2 final size:2
Alignment explanation
Indices: 1635620--1635662 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
1635610 CCACAAAAGC
1635620 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1635662 T
1 T
1635663 TCCTGACATA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1637565 original size:81 final size:81
Alignment explanation
Indices: 1637407--1638222 Score: 1114
Period size: 81 Copynumber: 10.1 Consensus size: 81
1637397 AACATTTAGA
* * * * * * ** *
1637407 CTTTTACCCAAAGGCATATAACCTTTCATCTAACTTGCATGATTGACAC-CTTCATGTTAAATAC
1 CTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTC-TGCCAAATGC
* *
1637471 ACAACTAGACCATTTAT
65 ACAACTAGGCCATTAAT
* * * * *
1637488 CTATCACTTAAAGGTATTTAATCTTTCATCTAACTGGCATAATTGACATATTTCTGCCAAATGCA
1 CTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGCA
***
1637553 CCGTTAGGCCATTAAT
66 CAACTAGGCCATTAAT
* * * *
1637569 CTTTTACTCAAATGTATTTAACCTTTCATCTAACTAGCATAATTGACATATTTCTTCCAAATGCA
1 CTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGCA
*
1637634 CAGCTAGGCCATTAAT
66 CAACTAGGCCATTAAT
** *
1637650 CTTTTACTCAAAGGTATTTAACCTTTCATCTAACTACCATAATTGACACCA-TTCTGCAAAATGC
1 CTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACA-CATTTCTGCCAAATGC
1637714 ACAACTAGGCCATTAAT
65 ACAACTAGGCCATTAAT
* * * * *
1637731 CTTTTAGTCAAAGGTATTTAACTTTTCATCTAACTGTCATAATTGACGCATTTCTGCGAAATGCA
1 CTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGCA
*
1637796 CAGCTAGGCCATTAAT
66 CAACTAGGCCATTAAT
* *
1637812 CTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCAGCCAAATGTA
1 CTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGCA
1637877 CAACTAGGCCATTAAT
66 CAACTAGGCCATTAAT
* * * *
1637893 CTTTTACTCAAAGGTATTTAACCTTTTATCTAACTAGCATAATTGACACCTTTCTGCCAAATGAA
1 CTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGCA
1637958 CAACTAGGCCATTAAT
66 CAACTAGGCCATTAAT
* * * * *
1637974 CTTTTACTTAAAGGTATTTAATCTTTCATCTAACTAGCATAATTGACACCTTTCTGCCAAAGGCA
1 CTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGCA
1638039 CAACTAGGCCATTAAT
66 CAACTAGGCCATTAAT
* * * *
1638055 CTTTTACTCAAAGGTATTTAACATTTCATTTAACTGGCATAATTGACACCTTTCTACCAAATGCA
1 CTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGCA
* *
1638120 CAACTACGACATTAAT
66 CAACTAGGCCATTAAT
* * * *
1638136 CTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGAATAATTTACACATTTATGTCAAATGCA
1 CTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGCA
1638201 CAACTAGGCCATTAAT
66 CAACTAGGCCATTAAT
1638217 CTTTTA
1 CTTTTA
1638223 TTTTGGAATA
Statistics
Matches: 654, Mismatches: 78, Indels: 6
0.89 0.11 0.01
Matches are distributed among these distances:
80 2 0.00
81 648 0.99
82 4 0.01
ACGTcount: A:0.33, C:0.22, G:0.10, T:0.35
Consensus pattern (81 bp):
CTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGCA
CAACTAGGCCATTAAT
Found at i:1648104 original size:11 final size:9
Alignment explanation
Indices: 1648086--1648170 Score: 102
Period size: 11 Copynumber: 9.0 Consensus size: 9
1648076 AAATAAATCC
1648086 AATGGATTA
1 AATGGATTA
1648095 AATGTGGATTA
1 AA--TGGATTA
1648106 AATGGATT-
1 AATGGATTA
1648114 AATGGATTA
1 AATGGATTA
1648123 AATGTGGATTA
1 AA--TGGATTA
1648134 AATGGATT-
1 AATGGATTA
1648142 AATGGATTA
1 AATGGATTA
1648151 AATGTGGATTA
1 AA--TGGATTA
1648162 AATGGATTA
1 AATGGATTA
1648171 TTTTTTTTGT
Statistics
Matches: 68, Mismatches: 0, Indels: 16
0.81 0.00 0.19
Matches are distributed among these distances:
8 16 0.24
9 25 0.37
11 27 0.40
ACGTcount: A:0.40, C:0.00, G:0.25, T:0.35
Consensus pattern (9 bp):
AATGGATTA
Found at i:1648118 original size:28 final size:28
Alignment explanation
Indices: 1648086--1648170 Score: 170
Period size: 28 Copynumber: 3.0 Consensus size: 28
1648076 AAATAAATCC
1648086 AATGGATTAAATGTGGATTAAATGGATT
1 AATGGATTAAATGTGGATTAAATGGATT
1648114 AATGGATTAAATGTGGATTAAATGGATT
1 AATGGATTAAATGTGGATTAAATGGATT
1648142 AATGGATTAAATGTGGATTAAATGGATT
1 AATGGATTAAATGTGGATTAAATGGATT
1648170 A
1 A
1648171 TTTTTTTTGT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 57 1.00
ACGTcount: A:0.40, C:0.00, G:0.25, T:0.35
Consensus pattern (28 bp):
AATGGATTAAATGTGGATTAAATGGATT
Found at i:1648121 original size:17 final size:18
Alignment explanation
Indices: 1648086--1648170 Score: 102
Period size: 20 Copynumber: 4.5 Consensus size: 18
1648076 AAATAAATCC
1648086 AATGGATTAAATGTGGATTA
1 AATGGATTAAA--TGGATTA
1648106 AATGGATT-AATGGATTA
1 AATGGATTAAATGGATTA
1648123 AATGTGGATTAAATGGATT-
1 AA--TGGATTAAATGGATTA
1648142 AATGGATTAAATGTGGATTA
1 AATGGATTAAA--TGGATTA
1648162 AATGGATTA
1 AATGGATTA
1648171 TTTTTTTTGT
Statistics
Matches: 59, Mismatches: 0, Indels: 12
0.83 0.00 0.17
Matches are distributed among these distances:
17 18 0.31
19 16 0.27
20 25 0.42
ACGTcount: A:0.40, C:0.00, G:0.25, T:0.35
Consensus pattern (18 bp):
AATGGATTAAATGGATTA
Found at i:1648541 original size:21 final size:21
Alignment explanation
Indices: 1648504--1648563 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 21
1648494 TATAAGGAAT
*
1648504 GGTTAAGTT-AAAGAATTAAAA
1 GGTTAATTTGAAA-AATTAAAA
* *
1648525 GGTTAATTTGAAAAATTGAAT
1 GGTTAATTTGAAAAATTAAAA
**
1648546 GGCCAATTTGAAAAATTA
1 GGTTAATTTGAAAAATTA
1648564 GTGAGCATAT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
21 29 0.91
22 3 0.09
ACGTcount: A:0.47, C:0.03, G:0.18, T:0.32
Consensus pattern (21 bp):
GGTTAATTTGAAAAATTAAAA
Found at i:1661608 original size:6 final size:7
Alignment explanation
Indices: 1661585--1661616 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
1661575 AGTGTAAAAT
1661585 AAATTGAA
1 AAATT-AA
1661593 AAATTAA
1 AAATTAA
1661600 AAATTAA
1 AAATTAA
1661607 AAATTAA
1 AAATTAA
1661614 AAA
1 AAA
1661617 GTTTAAGCGT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 19 0.79
8 5 0.21
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (7 bp):
AAATTAA
Found at i:1664102 original size:19 final size:19
Alignment explanation
Indices: 1664078--1664123 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
1664068 TATGAAGAAC
1664078 TATAATATTAACATAAAAA
1 TATAATATTAACATAAAAA
* *
1664097 TATAATATTAATATAAAGA
1 TATAATATTAACATAAAAA
1664116 TAT-ATATT
1 TATAATATT
1664124 TTTTTAATGA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 5 0.20
19 20 0.80
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (19 bp):
TATAATATTAACATAAAAA
Found at i:1677025 original size:10 final size:10
Alignment explanation
Indices: 1677007--1677051 Score: 54
Period size: 10 Copynumber: 4.2 Consensus size: 10
1676997 AAATAAATGG
*
1677007 ATAAGAAATA
1 ATAATAAATA
1677017 ATAATAAATAA
1 ATAATAAAT-A
1677028 TAGTAATAAATA
1 -A-TAATAAATA
1677040 ATAATAAATA
1 ATAATAAATA
1677050 AT
1 AT
1677052 TAATTATTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
10 19 0.61
11 2 0.06
12 2 0.06
13 8 0.26
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (10 bp):
ATAATAAATA
Found at i:1677029 original size:13 final size:13
Alignment explanation
Indices: 1677013--1677046 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
1677003 ATGGATAAGA
1677013 AATAATAATAAAT
1 AATAATAATAAAT
*
1677026 AATAGTAATAAAT
1 AATAATAATAAAT
1677039 AATAATAA
1 AATAATAA
1677047 ATAATTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (13 bp):
AATAATAATAAAT
Found at i:1677159 original size:30 final size:30
Alignment explanation
Indices: 1677110--1677184 Score: 82
Period size: 30 Copynumber: 2.4 Consensus size: 30
1677100 ATTATATATA
*
1677110 AATTTCCAAAAATGA-TTTTTAAAAGACTAT
1 AATTTTCAAAAATGATTTTTTAAAA-ACTAT
*
1677140 AATTTTCAAAAAT-ACTTTTTTAAAAATTAT
1 AATTTTCAAAAATGA-TTTTTTAAAAACTAT
1677170 ATGATTTTCAAAAAT
1 A--ATTTTCAAAAAT
1677185 TATATATTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
29 1 0.03
30 17 0.44
31 9 0.23
32 12 0.31
ACGTcount: A:0.47, C:0.08, G:0.04, T:0.41
Consensus pattern (30 bp):
AATTTTCAAAAATGATTTTTTAAAAACTAT
Found at i:1677182 original size:32 final size:31
Alignment explanation
Indices: 1677125--1677184 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 31
1677115 CCAAAAATGA
1677125 TTTTTAAAAGACTATAATTTTCAAAAATACT
1 TTTTTAAAAGACTATAATTTTCAAAAATACT
*
1677156 TTTTTAAAA-ATTATATGATTTTCAAAAAT
1 TTTTTAAAAGACTATA--ATTTTCAAAAAT
1677185 TATATATTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 5 0.19
31 9 0.35
32 12 0.46
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.45
Consensus pattern (31 bp):
TTTTTAAAAGACTATAATTTTCAAAAATACT
Found at i:1677228 original size:39 final size:37
Alignment explanation
Indices: 1677173--1677423 Score: 212
Period size: 39 Copynumber: 6.6 Consensus size: 37
1677163 AAATTATATG
1677173 ATTTTCAAAAATTATATATTATATAAGTTTTCAAAAAT
1 ATTTT-AAAAATTATATATTATATAAGTTTTCAAAAAT
* * *
1677211 ATTTTTTTAAAACTATATATTATATAA-ATTTCAAAAAATGT
1 A--TTTTAAAAATTATATATTATATAAGTTTTC-AAAAA--T
* *
1677252 TTTTTAAAAATTATATATTATAGAAGTTTTTCAAAAAT
1 ATTTTAAAAATTATATATTATATAAG-TTTTCAAAAAT
*
1677290 GATTTTAAAAATTATATATTATATATA-TTTTCTTAAAAT
1 -ATTTTAAAAATTATATATTATATA-AGTTTTC-AAAAAT
* *
1677329 ATTTTAAAAATTATATATTATA-CAGTTTTC--AAGT
1 ATTTTAAAAATTATATATTATATAAGTTTTCAAAAAT
* * *
1677363 GTTTTAAAAATCATAT-TATATATATA-TTTT-TAAAAT
1 ATTTTAAAAATTATATAT-TATATA-AGTTTTCAAAAAT
* *
1677399 ATTTTTAGAAACTATATATTATATA
1 A-TTTTAAAAATTATATATTATATA
1677424 CGTATTTTCA
Statistics
Matches: 174, Mismatches: 21, Indels: 37
0.75 0.09 0.16
Matches are distributed among these distances:
33 1 0.01
34 21 0.12
35 4 0.02
36 5 0.03
37 23 0.13
38 34 0.20
39 71 0.41
40 10 0.06
41 5 0.03
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.48
Consensus pattern (37 bp):
ATTTTAAAAATTATATATTATATAAGTTTTCAAAAAT
Found at i:1677430 original size:39 final size:36
Alignment explanation
Indices: 1677180--1677465 Score: 154
Period size: 39 Copynumber: 7.6 Consensus size: 36
1677170 ATGATTTTCA
* *
1677180 AAAATTATATATTATATA-AGTTTTCAAAAATATTTTTTT
1 AAAACTATATATTATATATA-TTTT-TAAAATA--TTTTT
* ** *
1677219 AAAACTATATATTATATAAATTTCAAAAAATGTTTTTT
1 AAAACTATATATTATATATATTT-TTAAAAT-ATTTTT
* * *
1677257 AAAAATTATATATTATAGA-AGTTTTTCAAAAATGATTTTA
1 -AAAACTATATATTATATATA-TTTTT--AAAAT-ATTTTT
* *
1677297 AAAATTATATATTATATATATTTTCTTAAAATATTTTA
1 AAAACTATATATTATATATA-TTT-TTAAAATATTTTT
* * * * * *
1677335 AAAATTATATA-T-TATACAGTTTTCAAGT-GTTTT
1 AAAACTATATATTATATATATTTTTAAAATATTTTT
*
1677368 AAAAATCATAT-TATATATATATTTTTAAAATATTTTT
1 AAAACT-ATATAT-TATATATATTTTTAAAATATTTTT
* * *
1677405 AGAAACTATATATTATATACGTATTTTCAAATTATTTGT
1 A-AAACTATATATTATATA--TATTTTTAAAATATTTTT
1677444 -AAACTATAATATATATATATAT
1 AAAACTAT-ATAT-TATATATAT
1677466 ATTAAAAAGA
Statistics
Matches: 200, Mismatches: 27, Indels: 42
0.74 0.10 0.16
Matches are distributed among these distances:
33 8 0.04
34 9 0.05
35 3 0.01
36 17 0.09
37 26 0.13
38 32 0.16
39 88 0.44
40 15 0.08
41 2 0.01
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.48
Consensus pattern (36 bp):
AAAACTATATATTATATATATTTTTAAAATATTTTT
Found at i:1677604 original size:56 final size:56
Alignment explanation
Indices: 1677543--1677655 Score: 199
Period size: 56 Copynumber: 2.0 Consensus size: 56
1677533 CAGTTTTAGA
1677543 AAAAGGAAAATGTGATTATTGAATAGGAAAGAGAACAGACCTCACATGTAGACTGT
1 AAAAGGAAAATGTGATTATTGAATAGGAAAGAGAACAGACCTCACATGTAGACTGT
* * *
1677599 AAAAGGAAAATGTGATTGTTGAATAGGAAAGAGAACGGAGCTCACATGTAGACTGT
1 AAAAGGAAAATGTGATTATTGAATAGGAAAGAGAACAGACCTCACATGTAGACTGT
1677655 A
1 A
1677656 CGCTTTGTTT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 54 1.00
ACGTcount: A:0.43, C:0.10, G:0.26, T:0.21
Consensus pattern (56 bp):
AAAAGGAAAATGTGATTATTGAATAGGAAAGAGAACAGACCTCACATGTAGACTGT
Found at i:1677914 original size:29 final size:30
Alignment explanation
Indices: 1677876--1677933 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 30
1677866 AGAAGGACAT
1677876 AAGATTTTATATTAAGAGA-TTATATTAAG
1 AAGATTTTATATTAAGAGATTTATATTAAG
1677905 AAGATTTTATATTAAGAGATTTATATTAA
1 AAGATTTTATATTAAGAGATTTATATTAA
1677934 TAGATGAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 19 0.68
30 9 0.32
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.43
Consensus pattern (30 bp):
AAGATTTTATATTAAGAGATTTATATTAAG
Found at i:1677927 original size:14 final size:14
Alignment explanation
Indices: 1677881--1677938 Score: 82
Period size: 14 Copynumber: 4.1 Consensus size: 14
1677871 GACATAAGAT
1677881 TTTATATTAAGAGA
1 TTTATATTAAGAGA
1677895 -TTATATTAAGAAGA
1 TTTATATTAAG-AGA
1677909 TTTTATATTAAGAGA
1 -TTTATATTAAGAGA
*
1677924 TTTATATTAATAGA
1 TTTATATTAAGAGA
1677938 T
1 T
1677939 GAATTTTTGA
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
13 10 0.25
14 17 0.43
15 3 0.08
16 10 0.25
ACGTcount: A:0.43, C:0.00, G:0.12, T:0.45
Consensus pattern (14 bp):
TTTATATTAAGAGA
Found at i:1678035 original size:90 final size:89
Alignment explanation
Indices: 1677927--1678108 Score: 276
Period size: 90 Copynumber: 2.0 Consensus size: 89
1677917 TAAGAGATTT
* * * *
1677927 ATATTAATAGATGAATTTTTGAAATTTTTAAAGTTTTAAGGAGTGAAGATAAATTATTAATAAAA
1 ATATTAAGAGATGAATTTTTAAAATTTTTAAAATTTTAAAGAGTGAAGATAAATTATTAATAAAA
**
1677992 A-ATATAAAAAGTTAAAAATATATTA
66 ATAT-TAAAAAAATAAAAATATA-TA
*
1678017 ATATTAAGAGATGAATTTTTAAAATTTTTAAAATTTTAAAGAGTGAAGATAAATTATTAATATAA
1 ATATTAAGAGATGAATTTTTAAAATTTTTAAAATTTTAAAGAGTGAAGATAAATTATTAATAAAA
1678082 ATATTAAAAAAATAAAAATATATA
66 ATATTAAAAAAATAAAAATATATA
1678106 ATA
1 ATA
1678109 ATTTTAAATC
Statistics
Matches: 84, Mismatches: 7, Indels: 3
0.89 0.07 0.03
Matches are distributed among these distances:
89 5 0.06
90 77 0.92
91 2 0.02
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.37
Consensus pattern (89 bp):
ATATTAAGAGATGAATTTTTAAAATTTTTAAAATTTTAAAGAGTGAAGATAAATTATTAATAAAA
ATATTAAAAAAATAAAAATATATA
Found at i:1678573 original size:21 final size:20
Alignment explanation
Indices: 1678487--1678644 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
1678477 AAATGACCAA
**
1678487 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
1678506 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
1678526 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
1678546 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
1678567 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
1678588 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
1678608 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
1678629 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
1678645 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:1678635 original size:20 final size:20
Alignment explanation
Indices: 1678611--1678860 Score: 268
Period size: 20 Copynumber: 12.5 Consensus size: 20
1678601 CGATTTTCCA
** *
1678611 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGAATCCGT
*
1678631 AAATCGCAACGCGAA-CACAT
1 AAATCGCAACGCGAATC-CGT
*
1678651 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGAATCCGT
*
1678671 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGAATCCGT
* **
1678691 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGAATCCGT
* *
1678711 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGAATCCGT
* *
1678731 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGAATCCGT
* *
1678751 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGAATCCGT
**
1678771 AAATCGCAACGATAATCCGT
1 AAATCGCAACGCGAATCCGT
* *
1678791 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGAATCCGT
**
1678811 AAATCGCAACGATAATCCGT
1 AAATCGCAACGCGAATCCGT
* *
1678831 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGAATCCGT
*
1678851 AAATCACAAC
1 AAATCGCAAC
1678861 ACTGAAATTT
Statistics
Matches: 202, Mismatches: 26, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
20 201 1.00
21 1 0.00
ACGTcount: A:0.37, C:0.25, G:0.19, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGAATCCGT
Found at i:1679581 original size:24 final size:24
Alignment explanation
Indices: 1679542--1679588 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
1679532 GAATTTGGTC
1679542 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
1679566 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
1679589 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:1679780 original size:12 final size:12
Alignment explanation
Indices: 1679763--1679787 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1679753 ATATAATCCT
1679763 GAAGAAGAAAAA
1 GAAGAAGAAAAA
1679775 GAAGAAGAAAAA
1 GAAGAAGAAAAA
1679787 G
1 G
1679788 TCCCCGAAGA
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:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:1682163 original size:19 final size:19
Alignment explanation
Indices: 1682123--1682239 Score: 181
Period size: 19 Copynumber: 6.4 Consensus size: 19
1682113 GATTCTCTCG
1682123 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
1682143 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
1682162 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
1682176 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
1682195 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
1682214 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
1682233 TTGCGAT
1 TTGCGAT
1682240 AGTCAATTTT
Statistics
Matches: 90, Mismatches: 2, Indels: 11
0.87 0.02 0.11
Matches are distributed among these distances:
14 6 0.07
16 7 0.08
17 7 0.08
19 55 0.61
20 15 0.17
ACGTcount: A:0.15, C:0.22, G:0.17, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:1682185 original size:33 final size:35
Alignment explanation
Indices: 1682142--1682239 Score: 146
Period size: 33 Copynumber: 2.8 Consensus size: 35
1682132 TCATTTCCGC
1682142 ATTGCGATTTTCATTTCGCATTGCGATTC-TCTCG
1 ATTGCGATTTTCATTTCGCATTGCGATTCATCTCG
*
1682176 -TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCG
1 ATTGCGATTTTCATTTCGCATTGCGA--TTCATCTCG
1682212 CATTGCGATTTTCATTTCGCATTGCGAT
1 -ATTGCGATTTTCATTTCGCATTGCGAT
1682240 AGTCAATTTT
Statistics
Matches: 58, Mismatches: 1, Indels: 8
0.87 0.01 0.12
Matches are distributed among these distances:
33 25 0.43
35 3 0.05
36 5 0.09
38 25 0.43
ACGTcount: A:0.15, C:0.21, G:0.17, T:0.46
Consensus pattern (35 bp):
ATTGCGATTTTCATTTCGCATTGCGATTCATCTCG
Found at i:1682217 original size:52 final size:53
Alignment explanation
Indices: 1682104--1682221 Score: 229
Period size: 53 Copynumber: 2.2 Consensus size: 53
1682094 GAAATGAAAA
1682104 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1682157 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1682209 TCGCATTGCGATT
1 TCGCATTGCGATT
1682222 TTCATTTCGC
Statistics
Matches: 65, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 31 0.48
53 34 0.52
ACGTcount: A:0.14, C:0.24, G:0.18, T:0.45
Consensus pattern (53 bp):
TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
Found at i:1682335 original size:14 final size:14
Alignment explanation
Indices: 1682316--1682370 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
1682306 CGGAAATGAA
1682316 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
1682330 AATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAG
1682349 AATCGCAACGAGAG
1 AATCGCAACGAGAG
1682363 AATCGCAA
1 AATCGCAA
1682371 TGCGAAATGA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.45, C:0.20, G:0.24, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:1682350 original size:33 final size:33
Alignment explanation
Indices: 1682298--1682389 Score: 175
Period size: 33 Copynumber: 2.8 Consensus size: 33
1682288 CCATTACATT
1682298 TCGCAATGCGGAAATGAAAATCGCAACGAGAGAA
1 TCGCAATGC-GAAATGAAAATCGCAACGAGAGAA
1682332 TCGCAATGCGAAATGAAAATCGCAACGAGAGAA
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAA
1682365 TCGCAATGCGAAATGAAAATCGCAA
1 TCGCAATGCGAAATGAAAATCGCAA
1682390 TGCGAAATGA
Statistics
Matches: 58, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
33 49 0.84
34 9 0.16
ACGTcount: A:0.45, C:0.18, G:0.24, T:0.13
Consensus pattern (33 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAA
Found at i:1682389 original size:52 final size:52
Alignment explanation
Indices: 1682330--1682446 Score: 207
Period size: 52 Copynumber: 2.2 Consensus size: 52
1682320 GCAACGAGAG
1682330 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAA
* *
1682382 AATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAA
*
1682434 AATCGCATTGCGA
1 AATCGCAATGCGA
1682447 TTCTCCCATT
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 62 1.00
ACGTcount: A:0.44, C:0.18, G:0.21, T:0.16
Consensus pattern (52 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAA
Found at i:1682495 original size:19 final size:19
Alignment explanation
Indices: 1682453--1682552 Score: 147
Period size: 19 Copynumber: 5.5 Consensus size: 19
1682443 GCGATTCTCC
1682453 CATTGCGATTTTCATTTCCG
1 CATTGCGATTTTCATTT-CG
1682473 CATTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
*
1682492 CATTGCGA--TTC-TCTCG
1 CATTGCGATTTTCATTTCG
1682508 --TTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
1682525 CATTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
1682544 CATTGCGAT
1 CATTGCGAT
1682553 AGTCAATTTT
Statistics
Matches: 73, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 6 0.08
16 7 0.10
17 7 0.10
19 36 0.49
20 17 0.23
ACGTcount: A:0.15, C:0.23, G:0.17, T:0.45
Consensus pattern (19 bp):
CATTGCGATTTTCATTTCG
Found at i:1682549 original size:52 final size:53
Alignment explanation
Indices: 1682436--1682552 Score: 209
Period size: 53 Copynumber: 2.2 Consensus size: 53
1682426 GAAATTAAAA
1682436 TCGCATTGCGATTCTCCCATTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCCCATTGCGATTTTCATTTCCGCATTGCGATTTTCATT
* *
1682489 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCCCATTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1682541 TCGCATTGCGAT
1 TCGCATTGCGAT
1682553 AGTCAATTTT
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
52 30 0.48
53 32 0.52
ACGTcount: A:0.15, C:0.25, G:0.17, T:0.44
Consensus pattern (53 bp):
TCGCATTGCGATTCTCCCATTGCGATTTTCATTTCCGCATTGCGATTTTCATT
Found at i:1684681 original size:14 final size:14
Alignment explanation
Indices: 1684662--1684718 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
1684652 GCGAAATGAA
*
1684662 AATCGCAACGACAG
1 AATCGCAACGAAAG
1684676 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
1684693 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
1684709 AATCGCAACG
1 AATCGCAACG
1684719 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:1684689 original size:33 final size:33
Alignment explanation
Indices: 1684643--1684735 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
1684633 GCGAAACCAA
*
1684643 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
1684676 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
1684709 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
1684736 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:1684700 original size:19 final size:19
Alignment explanation
Indices: 1684606--1684740 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
1684596 TAGTTTACTT
* *
1684606 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
1684626 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
1684645 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
1684664 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
1684678 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
1684697 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
1684711 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
1684730 TCGCAATGCGA
1 TCGCAACGCGA
1684741 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:1684758 original size:19 final size:19
Alignment explanation
Indices: 1684736--1684864 Score: 116
Period size: 19 Copynumber: 7.3 Consensus size: 19
1684726 AAAATCGCAA
1684736 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
1684755 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
*
1684769 TGCGATTATGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
1684788 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
1684802 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
1684821 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
1684840 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
1684860 TGCGA
1 TGCGA
1684865 AAGTAAACTA
Statistics
Matches: 89, Mismatches: 10, Indels: 21
0.74 0.08 0.17
Matches are distributed among these distances:
14 21 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.54
20 13 0.15
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.45
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:1684781 original size:33 final size:33
Alignment explanation
Indices: 1684736--1684827 Score: 141
Period size: 33 Copynumber: 2.8 Consensus size: 33
1684726 AAAATCGCAA
1684736 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
*
1684769 TGCGATTATGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
1684802 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
1684828 TTGGTTTCGC
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
33 52 0.96
34 2 0.04
ACGTcount: A:0.09, C:0.18, G:0.28, T:0.45
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:1685067 original size:93 final size:93
Alignment explanation
Indices: 1684908--1685474 Score: 1107
Period size: 93 Copynumber: 6.1 Consensus size: 93
1684898 TTGAATGGAT
1684908 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1684973 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
*
1685001 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTATAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1685066 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
*
1685094 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTATAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1685159 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
1685187 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1685252 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
1685280 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1685345 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
1685373 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
1685438 AGTTTAGCAGAATTGGCAGCAACCGAAT
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
1685466 AAATTTACT
1 AAATTTACT
1685475 AAGCAATCTA
Statistics
Matches: 471, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 471 1.00
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:1687192 original size:14 final size:14
Alignment explanation
Indices: 1687173--1687262 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
1687163 TTGAAATGAA
1687173 AATCGCAACGAGAG
1 AATCGCAACGAGAG
1687187 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
1687204 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
1687220 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
1687239 AATCGCAACGAGAG
1 AATCGCAACGAGAG
1687253 AATCGCAACG
1 AATCGCAACG
1687263 CGAAATGAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.42, C:0.23, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:1687210 original size:33 final size:33
Alignment explanation
Indices: 1687165--1687279 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
1687155 TCTTTTGGTT
1687165 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
1687198 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1687231 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1687264 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
1687280 TGCGATTTTG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:1687211 original size:19 final size:18
Alignment explanation
Indices: 1687172--1687284 Score: 88
Period size: 19 Copynumber: 6.8 Consensus size: 18
1687162 GTTGAAATGA
1687172 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
1687187 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
1687204 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
1687220 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
1687237 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
*
1687253 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
1687270 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
1687285 TTTTGGTTTC
Statistics
Matches: 79, Mismatches: 4, Indels: 26
0.72 0.04 0.24
Matches are distributed among these distances:
14 24 0.30
16 15 0.19
17 12 0.15
19 28 0.35
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:1687315 original size:14 final size:14
Alignment explanation
Indices: 1687296--1687352 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
1687286 TTTGGTTTCG
1687296 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
1687310 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
1687329 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
1687343 CGTTGCGATT
1 CGTTGCGATT
1687353 TTCATTTCGC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:1687334 original size:19 final size:19
Alignment explanation
Indices: 1687310--1687398 Score: 89
Period size: 19 Copynumber: 4.9 Consensus size: 19
1687300 GCGATTCTCT
1687310 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
1687329 CGTTGCGA--TTC---TCT
1 CGTTGCGATTTTCATTTCG
1687343 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*** *
1687362 CGTTGCGACAGTCATTCTCT
1 CGTTGCGATTTTCATT-TCG
1687382 CGTTGCGATTTTCATTT
1 CGTTGCGATTTTCATTT
1687399 ATCTCGTTGC
Statistics
Matches: 55, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
14 10 0.18
16 3 0.05
17 3 0.05
19 24 0.44
20 15 0.27
ACGTcount: A:0.11, C:0.24, G:0.20, T:0.45
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:1687390 original size:39 final size:33
Alignment explanation
Indices: 1687280--1687398 Score: 166
Period size: 33 Copynumber: 3.4 Consensus size: 33
1687270 AAAATCGCAA
**
1687280 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1687313 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1687346 TGCGATTTTCATTTCGCGTTGCGACAGTCATTCTCTCGT
1 TGCGATTTTCATTTCGCGTT--G-C-G--ATTCTCTCGT
1687385 TGCGATTTTCATTT
1 TGCGATTTTCATTT
1687399 ATCTCGTTGC
Statistics
Matches: 78, Mismatches: 2, Indels: 6
0.91 0.02 0.07
Matches are distributed among these distances:
33 51 0.65
35 1 0.01
36 1 0.01
37 1 0.01
39 24 0.31
ACGTcount: A:0.10, C:0.23, G:0.22, T:0.45
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:1687532 original size:33 final size:33
Alignment explanation
Indices: 1687490--1687560 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
1687480 AATACTAACT
1687490 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
* *
1687523 TGAAAATCGCAACGAGAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1687556 TGAAA
1 TGAAA
1687561 TCTAAGTGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.48, C:0.17, G:0.24, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
Found at i:1687794 original size:22 final size:22
Alignment explanation
Indices: 1687742--1687796 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
1687732 TGGTTGTGAG
**
1687742 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
1687764 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
1687786 GGATTTCTTCG
1 GGATTTCTTCG
1687797 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:1687967 original size:20 final size:20
Alignment explanation
Indices: 1687942--1688135 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
1687932 CTTTAAATAT
1687942 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
1687962 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
1687984 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
1688003 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
1688023 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
1688043 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
1688063 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
1688083 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
1688103 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
1688123 CGCGTTGCGATTT
1 CGCGTTGCGATTT
1688136 TGGAAAATCG
Statistics
Matches: 147, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 128 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:1688129 original size:60 final size:60
Alignment explanation
Indices: 1687942--1688135 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
1687932 CTTTAAATAT
**
1687942 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
1688003 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
1688063 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
1688123 CGCGTTGCGATTT
1 CGCGTTGCGATTT
1688136 TGGAAAATCG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 84 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:1688152 original size:21 final size:21
Alignment explanation
Indices: 1688122--1688204 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
1688112 ATTTTCATAT
*
1688122 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
1688143 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
1688164 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
1688185 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
1688205 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:1688195 original size:42 final size:43
Alignment explanation
Indices: 1688102--1688200 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
1688092 ATTTATGTGT
* *
1688102 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
1688143 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
1688185 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
1688201 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:1688740 original size:33 final size:31
Alignment explanation
Indices: 1688700--1688773 Score: 87
Period size: 33 Copynumber: 2.3 Consensus size: 31
1688690 ATCTATATAT
*
1688700 TTTTTAAATTATTTCATCTTAATATTTAAATTA
1 TTTTTAAATTA-TTCATCTTAAT-CTTAAATTA
* *
1688733 TTTTTAAAATCATTCATTTTAATCTTAAATTA
1 TTTTT-AAATTATTCATCTTAATCTTAAATTA
1688765 -TTTTAAATT
1 TTTTTAAATT
1688774 TAATTGTAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
30 4 0.11
31 4 0.11
32 8 0.22
33 15 0.42
34 5 0.14
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (31 bp):
TTTTTAAATTATTCATCTTAATCTTAAATTA
Found at i:1688766 original size:32 final size:34
Alignment explanation
Indices: 1688697--1688768 Score: 94
Period size: 32 Copynumber: 2.2 Consensus size: 34
1688687 TATATCTATA
* * *
1688697 TATTTTTTAAATTATTTCATCTTAATATTTAAAT
1 TATTTTTAAAATCATTTCATCTTAATACTTAAAT
*
1688731 TATTTTTAAAATCA-TTCATTTTAAT-CTTAAAT
1 TATTTTTAAAATCATTTCATCTTAATACTTAAAT
1688763 TATTTT
1 TATTTT
1688769 AAATTTAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
32 12 0.35
33 10 0.29
34 12 0.35
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.58
Consensus pattern (34 bp):
TATTTTTAAAATCATTTCATCTTAATACTTAAAT
Found at i:1688804 original size:13 final size:13
Alignment explanation
Indices: 1688782--1688815 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
1688772 TTTAATTGTA
1688782 ATTTTATATTTTT
1 ATTTTATATTTTT
*
1688795 ATTTTTTATTTTT
1 ATTTTATATTTTT
*
1688808 ATATTATA
1 ATTTTATA
1688816 CGTTTGAGTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (13 bp):
ATTTTATATTTTT
Found at i:1688882 original size:17 final size:17
Alignment explanation
Indices: 1688860--1688892 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1688850 GATTTTTTTA
*
1688860 AAAAAATAATATAAATT
1 AAAAAATAAAATAAATT
1688877 AAAAAATAAAATAAAT
1 AAAAAATAAAATAAAT
1688893 ACTAATTAGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (17 bp):
AAAAAATAAAATAAATT
Found at i:1694495 original size:20 final size:20
Alignment explanation
Indices: 1694470--1694663 Score: 178
Period size: 20 Copynumber: 9.6 Consensus size: 20
1694460 TAGTTGAAAA
1694470 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
* * *
1694490 TCGCGTTGCGATAGTT-GA-A
1 TCGCGTTGCGAT-TTTCCATT
1694509 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
* ** **
1694529 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGAT-TTTCCATT
1694550 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
* ** **
1694570 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGAT-TTTCCATT
1694591 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
* * *
1694611 TCGCGTTGCGATAGTCTACA-G
1 TCGCGTTGCGAT--TTTCCATT
1694632 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
1694652 TCGCGTTGCGAT
1 TCGCGTTGCGAT
1694664 AGTCTACAGT
Statistics
Matches: 134, Mismatches: 32, Indels: 16
0.74 0.18 0.09
Matches are distributed among these distances:
18 2 0.01
19 17 0.13
20 67 0.50
21 44 0.33
22 4 0.03
ACGTcount: A:0.16, C:0.22, G:0.25, T:0.38
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCCATT
Found at i:1694673 original size:41 final size:41
Alignment explanation
Indices: 1694445--1694666 Score: 387
Period size: 41 Copynumber: 5.5 Consensus size: 41
1694435 ATTCGCATTG
*
1694445 CATTTAGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
1694486 CATTTCGCGTTGCGATAGTTG--AATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
1694525 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
1694566 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
* *
1694607 CATTTCGCGTTGCGATAGTCT-ACAGTCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGT-TGAAAATCGCGTTGCGATTTTC
1694648 CATTTCGCGTTGCGATAGT
1 CATTTCGCGTTGCGATAGT
1694667 CTACAGTTGT
Statistics
Matches: 175, Mismatches: 3, Indels: 6
0.95 0.02 0.03
Matches are distributed among these distances:
39 39 0.22
41 135 0.77
42 1 0.01
ACGTcount: A:0.18, C:0.20, G:0.25, T:0.37
Consensus pattern (41 bp):
CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
Found at i:1694683 original size:22 final size:21
Alignment explanation
Indices: 1694613--1694696 Score: 100
Period size: 22 Copynumber: 4.0 Consensus size: 21
1694603 TTTCCATTTC
*
1694613 GCGTTGCGATAGTCTACAGTC
1 GCGTTGCGATAGTCTACAGTT
* * *
1694634 GCGTTGCGAT--TTTCCATTT
1 GCGTTGCGATAGTCTACAGTT
1694653 CGCGTTGCGATAGTCTACAGTT
1 -GCGTTGCGATAGTCTACAGTT
1694675 GTCGTTGCGATAGTCTACAGTT
1 G-CGTTGCGATAGTCTACAGTT
1694697 ATCATTGCGA
Statistics
Matches: 52, Mismatches: 7, Indels: 7
0.79 0.11 0.11
Matches are distributed among these distances:
19 5 0.10
20 10 0.19
21 11 0.21
22 26 0.50
ACGTcount: A:0.17, C:0.21, G:0.26, T:0.36
Consensus pattern (21 bp):
GCGTTGCGATAGTCTACAGTT
Found at i:1694704 original size:22 final size:22
Alignment explanation
Indices: 1694657--1694707 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
1694647 CCATTTCGCG
* *
1694657 TTGCGATAGTCTACAGTTGTCG
1 TTGCGATAGTCTACAGTTATCA
1694679 TTGCGATAGTCTACAGTTATCA
1 TTGCGATAGTCTACAGTTATCA
1694701 TTGCGAT
1 TTGCGAT
1694708 TTTCCAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.22, C:0.18, G:0.24, T:0.37
Consensus pattern (22 bp):
TTGCGATAGTCTACAGTTATCA
Found at i:1694818 original size:6 final size:6
Alignment explanation
Indices: 1694807--1694849 Score: 86
Period size: 6 Copynumber: 7.2 Consensus size: 6
1694797 GACACGTATT
1694807 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG A
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG A
1694850 GACGAGACGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.35, C:0.49, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:1694856 original size:5 final size:5
Alignment explanation
Indices: 1694846--1694887 Score: 77
Period size: 5 Copynumber: 8.6 Consensus size: 5
1694836 GACCACGACC
1694846 ACGAG ACGAG ACGAG ACGAG ACGAG ACGAG ACGAG ACG-G ACG
1 ACGAG ACGAG ACGAG ACGAG ACGAG ACGAG ACGAG ACGAG ACG
1694888 GCGGCGGCGG
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 4 0.11
5 33 0.89
ACGTcount: A:0.38, C:0.21, G:0.40, T:0.00
Consensus pattern (5 bp):
ACGAG
Found at i:1695572 original size:41 final size:41
Alignment explanation
Indices: 1695523--1695661 Score: 224
Period size: 41 Copynumber: 3.4 Consensus size: 41
1695513 AATGGAAAAG
* *
1695523 ATCGCAACGCGAAATGGAAAACCACAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAAAAACGCAACGCGATTTTCAACT
* * *
1695564 ATCGCAACGCGAAATGGAAAATCGCAACGCGATCTCCAACT
1 ATCGCAACGCGAAATGGAAAAACGCAACGCGATTTTCAACT
1695605 ATCGCAACGCGAAATGGAAAAACGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAAAAACGCAACGCGATTTTCAACT
*
1695646 ATCGCAATGCGAAATG
1 ATCGCAACGCGAAATG
1695662 CAACGTGAAT
Statistics
Matches: 90, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 90 1.00
ACGTcount: A:0.38, C:0.26, G:0.19, T:0.17
Consensus pattern (41 bp):
ATCGCAACGCGAAATGGAAAAACGCAACGCGATTTTCAACT
Found at i:1695573 original size:21 final size:21
Alignment explanation
Indices: 1695547--1695665 Score: 89
Period size: 21 Copynumber: 5.8 Consensus size: 21
1695537 TGGAAAACCA
* *
1695547 CAACGCGATTTTCAACTATCG
1 CAACGCGATATGCAACTATCG
* * *
1695568 CAACGCGAAATGGAA-AATCG
1 CAACGCGATATGCAACTATCG
* *
1695588 CAACGCGATCTCCAACTATCG
1 CAACGCGATATGCAACTATCG
* * * *
1695609 CAACGCGAAATGGAA-AAACG
1 CAACGCGATATGCAACTATCG
* *
1695629 CAACGCGATTTTCAACTATCG
1 CAACGCGATATGCAACTATCG
* *
1695650 CAATGCGAAATGCAAC
1 CAACGCGATATGCAAC
1695666 GTGAATTTGC
Statistics
Matches: 70, Mismatches: 26, Indels: 4
0.70 0.26 0.04
Matches are distributed among these distances:
20 29 0.41
21 41 0.59
ACGTcount: A:0.37, C:0.27, G:0.18, T:0.18
Consensus pattern (21 bp):
CAACGCGATATGCAACTATCG
Found at i:1695589 original size:20 final size:20
Alignment explanation
Indices: 1695501--1695636 Score: 110
Period size: 20 Copynumber: 6.6 Consensus size: 20
1695491 ACTGTAGACT
*
1695501 ATCGCAACGTGAAATGGAAAA
1 ATCGCAACGCGAAATGG-AAA
1695522 GATCGCAACGCGAAATGGAAA
1 -ATCGCAACGCGAAATGGAAA
* * ** ** *
1695543 ACCACAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAA-A
1695564 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
** ** *
1695584 ATCGCAACGCGATCTCCAACT
1 ATCGCAACGCGAAATGGAA-A
1695605 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
*
1695625 AACGCAACGCGA
1 ATCGCAACGCGA
1695637 TTTTCAACTA
Statistics
Matches: 86, Mismatches: 26, Indels: 6
0.73 0.22 0.05
Matches are distributed among these distances:
20 39 0.45
21 31 0.36
22 16 0.19
ACGTcount: A:0.40, C:0.25, G:0.21, T:0.13
Consensus pattern (20 bp):
ATCGCAACGCGAAATGGAAA
Found at i:1697155 original size:16 final size:16
Alignment explanation
Indices: 1697104--1697161 Score: 62
Period size: 16 Copynumber: 3.6 Consensus size: 16
1697094 TCAATATGCC
*
1697104 GAAAGTAATTCAAATC
1 GAAAGTAATTCAAATA
* * *
1697120 GAAAATAACTCAAATT
1 GAAAGTAATTCAAATA
*
1697136 GAAAGTAATTCGAATA
1 GAAAGTAATTCAAATA
*
1697152 GAAAGAAATT
1 GAAAGTAATT
1697162 TAAACTTGAA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.53, C:0.09, G:0.14, T:0.24
Consensus pattern (16 bp):
GAAAGTAATTCAAATA
Found at i:1701861 original size:24 final size:24
Alignment explanation
Indices: 1701826--1701897 Score: 135
Period size: 24 Copynumber: 3.0 Consensus size: 24
1701816 GCCCAAATGG
1701826 AGCCCAACTACAACATCAACCCAGC
1 AGCCC-ACTACAACATCAACCCAGC
1701851 AGCCCACTACAACATCAACCCAGC
1 AGCCCACTACAACATCAACCCAGC
1701875 AGCCCACTACAACATCAACCCAG
1 AGCCCACTACAACATCAACCCAG
1701898 GCCCAGTCGA
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
24 42 0.89
25 5 0.11
ACGTcount: A:0.39, C:0.44, G:0.08, T:0.08
Consensus pattern (24 bp):
AGCCCACTACAACATCAACCCAGC
Found at i:1705122 original size:129 final size:129
Alignment explanation
Indices: 1704892--1705157 Score: 487
Period size: 129 Copynumber: 2.1 Consensus size: 129
1704882 CACGTGTAAC
*
1704892 CGACTCCCGGACCCGTTACATCGAATCTTTGTAAACGTAGATCAGTTTTTTGTCAAAAAATGATT
1 CGACTCTCGGACCCGTTACATCGAATCTTTGTAAACGTAGATCAGTTTTTTGTCAAAAAATGATT
* * *
1704957 TTTCTTAAAATTGTTTTAAAAGACGTTTTTATGTATTCGACCTACCTAACTCAAAGGTTAATGA
66 TTTCTTAAAATTATTTTAAAAGACGTGTTTATGTATTCGACCTACCTAACTCAAAGATTAATGA
1705021 CGACTCTCGGACCCGTTACATCGAATCTTTGTAAACGTAGATCAGTTTTTTGTCAAAAAATGATT
1 CGACTCTCGGACCCGTTACATCGAATCTTTGTAAACGTAGATCAGTTTTTTGTCAAAAAATGATT
*
1705086 TTTCTTAAAATTATTTTAAAAGACGTGTTTATGTATTCGACCTACTTAACTCAAAGATTAATGA
66 TTTCTTAAAATTATTTTAAAAGACGTGTTTATGTATTCGACCTACCTAACTCAAAGATTAATGA
1705150 CGACTCTC
1 CGACTCTC
1705158 ATTCAATTTA
Statistics
Matches: 132, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
129 132 1.00
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.36
Consensus pattern (129 bp):
CGACTCTCGGACCCGTTACATCGAATCTTTGTAAACGTAGATCAGTTTTTTGTCAAAAAATGATT
TTTCTTAAAATTATTTTAAAAGACGTGTTTATGTATTCGACCTACCTAACTCAAAGATTAATGA
Found at i:1709058 original size:22 final size:22
Alignment explanation
Indices: 1709024--1709074 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
1709014 CTGAGTGGCA
* *
1709024 TATGTAATTTGTCCCTAAGGACC
1 TATG-AATATGTCCCGAAGGACC
1709047 TATGAATATGTCCCGAAGGACC
1 TATGAATATGTCCCGAAGGACC
1709069 TATGAA
1 TATGAA
1709075 ACCCTCTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 22 0.85
23 4 0.15
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (22 bp):
TATGAATATGTCCCGAAGGACC
Found at i:1715059 original size:20 final size:20
Alignment explanation
Indices: 1715017--1715072 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
1715007 GAACCGGTCC
*
1715017 GAGTCAACTTGGACCGAACT
1 GAGTCAACTTGAACCGAACT
*
1715037 GAGTCAACTTGAATCGATA-T
1 GAGTCAACTTGAACCGA-ACT
*
1715057 GAGTTAACTTGAACCG
1 GAGTCAACTTGAACCG
1715073 GTTTGACCCG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 30 0.97
21 1 0.03
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (20 bp):
GAGTCAACTTGAACCGAACT
Found at i:1715158 original size:23 final size:23
Alignment explanation
Indices: 1715101--1715159 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
1715091 GACCTGACTA
*
1715101 ATTGACTTTGAAC-ATAGTTGACC
1 ATTGACTTTG-ACTAGAGTTGACC
1715124 ATTGACTTTGACTAGAGTTGACC
1 ATTGACTTTGACTAGAGTTGACC
*
1715147 ATTTACTTTGACT
1 ATTGACTTTGACT
1715160 TTGACCAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
22 2 0.06
23 31 0.94
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.39
Consensus pattern (23 bp):
ATTGACTTTGACTAGAGTTGACC
Found at i:1718420 original size:5 final size:6
Alignment explanation
Indices: 1718405--1718429 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
1718395 ATCATAGAAG
1718405 AAAAAT AAAAAT AAAAAT AAAAAT A
1 AAAAAT AAAAAT AAAAAT AAAAAT A
1718430 TTTTAACATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:1734858 original size:61 final size:60
Alignment explanation
Indices: 1734755--1734872 Score: 184
Period size: 61 Copynumber: 1.9 Consensus size: 60
1734745 TAACGAGTAA
*
1734755 TAAGTCGAGTTGAGAATAAGTTTTTTAACGAGTACCAATCAAGTAAAATTTTATTAAGCT
1 TAAGTCGAGTTGAGAATAAGTTTTTTAACAAGTACCAATCAAGTAAAATTTTATTAAGCT
* *
1734815 TAAGTCGAGTTGAGCAATAAGTTTTTTAACAAGGT-CGAGTCAAGTAAAATTTTATTAA
1 TAAGTCGAGTTGAG-AATAAGTTTTTTAACAA-GTACCAATCAAGTAAAATTTTATTAA
1734873 ATTTAACGAA
Statistics
Matches: 53, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
60 14 0.26
61 37 0.70
62 2 0.04
ACGTcount: A:0.38, C:0.09, G:0.18, T:0.35
Consensus pattern (60 bp):
TAAGTCGAGTTGAGAATAAGTTTTTTAACAAGTACCAATCAAGTAAAATTTTATTAAGCT
Found at i:1740676 original size:22 final size:20
Alignment explanation
Indices: 1740642--1740697 Score: 60
Period size: 22 Copynumber: 2.7 Consensus size: 20
1740632 TACCGTAAGG
*
1740642 GGGTATC-AGTACCATAGTAT
1 GGGTATCGA-TACCATAGTAA
*
1740662 GGTAGTATCGATACCATGGTAA
1 GG--GTATCGATACCATAGTAA
1740684 GGGTATCGATACCA
1 GGGTATCGATACCA
1740698 GGCAACATTG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
20 14 0.45
22 16 0.52
23 1 0.03
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.27
Consensus pattern (20 bp):
GGGTATCGATACCATAGTAA
Found at i:1740743 original size:95 final size:96
Alignment explanation
Indices: 1740569--1740770 Score: 246
Period size: 95 Copynumber: 2.1 Consensus size: 96
1740559 CCAATGAGGC
* * * * *
1740569 AGTATCTATACTATTGTAACGGTATCGATACCAAGCAAACATCGTATCTAATTTTGGTATCGATA
1 AGTATCGATACCATGGTAACGGTATCGATACCAAGCAAACATCGAACCTAATTTTGGTATCGATA
** *
1740634 CCGTAAGGGGGTATCAGTACCATAGTATGGT
66 CCGTAAGGAAGTATCAGTACCATAGTATGGA
* * *
1740665 AGTATCGATACCATGGTAAGGGTATCGATACCAGGC-AACATTGAACCTAATTTTGGTATCGATA
1 AGTATCGATACCATGGTAACGGTATCGATACCAAGCAAACATCGAACCTAATTTTGGTATCGATA
* * *
1740729 CCCG-GAGGAAGTATCGGTACCATAGTATTGA
66 -CCGTAAGGAAGTATCAGTACCATAGTATGGA
*
1740760 ATTATCGATAC
1 AGTATCGATAC
1740771 TAAGGTAGTA
Statistics
Matches: 90, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
95 56 0.62
96 34 0.38
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (96 bp):
AGTATCGATACCATGGTAACGGTATCGATACCAAGCAAACATCGAACCTAATTTTGGTATCGATA
CCGTAAGGAAGTATCAGTACCATAGTATGGA
Found at i:1741262 original size:45 final size:45
Alignment explanation
Indices: 1741203--1741516 Score: 369
Period size: 45 Copynumber: 7.0 Consensus size: 45
1741193 TACTGGCATG
* * *
1741203 AAAGGATGCCATAGTTGAAATGCATATGGGTGCATTATCAACATA
1 AAAGTATGCTATAGTTGAAATGCATATGGGTGCATTATCAACAGA
* *
1741248 AAAGTATGCTATAGTTAAAATGCATATGGGTGCATTATGAACAGA
1 AAAGTATGCTATAGTTGAAATGCATATGGGTGCATTATCAACAGA
* * * * *
1741293 AAAGTATGCTATAGTTGAAATGTATATGAGTACCTTATCAATAGA
1 AAAGTATGCTATAGTTGAAATGCATATGGGTGCATTATCAACAGA
* ** * *
1741338 AAAGTTTGCTATAGTTGAAATATATATGGATACATTATCAACAGA
1 AAAGTATGCTATAGTTGAAATGCATATGGGTGCATTATCAACAGA
* * *
1741383 AAAGTATGCTATAGTTGAAATGTATATGGGTACATTATCAATAGA
1 AAAGTATGCTATAGTTGAAATGCATATGGGTGCATTATCAACAGA
* * * *
1741428 AAAGTATGCTATAGTTGGAATACATATGGGTGCATTATTAACGGA
1 AAAGTATGCTATAGTTGAAATGCATATGGGTGCATTATCAACAGA
* * * *
1741473 AAAGTATGCCATAGTTAAAAATGCATAAT-GGTGTATTATAAACA
1 AAAGTATGCTATAGTT-GAAATGCAT-ATGGGTGCATTATCAACA
1741517 AGAATGGAGG
Statistics
Matches: 231, Mismatches: 36, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
45 211 0.91
46 18 0.08
47 2 0.01
ACGTcount: A:0.40, C:0.09, G:0.20, T:0.31
Consensus pattern (45 bp):
AAAGTATGCTATAGTTGAAATGCATATGGGTGCATTATCAACAGA
Found at i:1747887 original size:22 final size:21
Alignment explanation
Indices: 1747862--1747902 Score: 73
Period size: 21 Copynumber: 1.9 Consensus size: 21
1747852 GAGAGTTTTG
1747862 AAAATATTTGGTCCATAATTCA
1 AAAAT-TTTGGTCCATAATTCA
1747884 AAAATTTTGGTCCATAATT
1 AAAATTTTGGTCCATAATT
1747903 TTTAGAGGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
AAAATTTTGGTCCATAATTCA
Found at i:1753096 original size:3 final size:3
Alignment explanation
Indices: 1753088--1753115 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
1753078 ATAAAAATTA
1753088 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1753116 GAAAACCAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:1753514 original size:134 final size:134
Alignment explanation
Indices: 1753267--1753946 Score: 792
Period size: 134 Copynumber: 5.1 Consensus size: 134
1753257 TCTACTTAAT
* * * *
1753267 GGAAGATTGAATCGATGCATACTTGTTCCACTATCACTAAGAGAATATCAAATCTTGAAATAGA-
1 GGAAGATTGAATCGAGGCAGACTTGTTCCACTGTCACTAAGAGAATATCAAATCTTGAAAGAGAT
* * * * * *
1753331 GAGATCTATTTTACTTCTTCTTGAGGGAATATCAGATATT-GTGACGTTGATTCATTCCACTGTT
66 G-GATATGTTCTGCTTCTTCTTGAGGGAAAATCAGAT-TTGGGGACGTTGATTCATTCCACTGTT
1753395 ACTC-A
129 ACTCAA
* * * *
1753400 GAGAATATTGAATCGAGGCAGACTTGTT-CACCTGTCACTAAGGGAATATCAAAACTTCAATA-A
1 G-GAAGATTGAATCGAGGCAGACTTGTTCCA-CTGTCACTAAGAGAATATCAAATCTTGAA-AGA
* * *
1753463 G-TGGAATATGTTCTGCTTCATCTTGAGGGAAAATCAAATTTGGGGATGTTGATTCATTCCACTG
63 GATGG-ATATGTTCTGCTTCTTCTTGAGGGAAAATCAGATTTGGGGACGTTGATTCATTCCACTG
*
1753527 TTACTTAA
127 TTACTCAA
* * * ** *
1753535 GGAAGTTTGAATCAAGGCAGACTTGTTCCACTGTTACTCTGAGAATATCAAATCTTGAAAGATAT
1 GGAAGATTGAATCGAGGCAGACTTGTTCCACTGTCACTAAGAGAATATCAAATCTTGAAAGAGAT
* * *
1753600 GGATATGTTCCGCTTCTTCTTGAGGGAAAATCAGATTTGAGGACATTGATTCATTCCACTGTTAC
66 GGATATGTTCTGCTTCTTCTTGAGGGAAAATCAGATTTGGGGACGTTGATTCATTCCACTGTTAC
*
1753665 TCAG
131 TCAA
* * *
1753669 GGAAGATTGAAT--A---A-ACTTGTTCCATTGTTACTCAGAGAATATCAAATCTTGAAAGAGAT
1 GGAAGATTGAATCGAGGCAGACTTGTTCCACTGTCACTAAGAGAATATCAAATCTTGAAAGAGAT
* * * * * * *
1753728 AGATTTGTTTTGCTTCTTCTTGAGGGAAAATTAGATATGGGGAAGTTGATTCATTCCACTATTAC
66 GGATATGTTCTGCTTCTTCTTGAGGGAAAATCAGATTTGGGGACGTTGATTCATTCCACTGTTAC
1753793 TCAA
131 TCAA
* *
1753797 GGAAGATTGAATCGAGGCAGACTTGTTCCACTATCACTCAAG-GAATATCAAATCTTGAAAAAGA
1 GGAAGATTGAATCGAGGCAGACTTGTTCCACTGTCACT-AAGAGAATATCAAATCTTGAAAGAGA
* * * * * *
1753861 TGGATCTGTTTTGCTTCTTCTTGAGGGAAAATAAGATATGGGGATGTTGATTCATTCCACTTTTA
65 TGGATATGTTCTGCTTCTTCTTGAGGGAAAATCAGATTTGGGGACGTTGATTCATTCCACTGTTA
1753926 CTCAA
130 CTCAA
1753931 GGAAGATTGAATCGAG
1 GGAAGATTGAATCGAG
1753947 TTTGATTCGC
Statistics
Matches: 470, Mismatches: 60, Indels: 33
0.83 0.11 0.06
Matches are distributed among these distances:
128 112 0.24
129 1 0.00
130 1 0.00
132 1 0.00
133 8 0.02
134 337 0.72
135 10 0.02
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.33
Consensus pattern (134 bp):
GGAAGATTGAATCGAGGCAGACTTGTTCCACTGTCACTAAGAGAATATCAAATCTTGAAAGAGAT
GGATATGTTCTGCTTCTTCTTGAGGGAAAATCAGATTTGGGGACGTTGATTCATTCCACTGTTAC
TCAA
Found at i:1753845 original size:262 final size:265
Alignment explanation
Indices: 1753267--1753943 Score: 825
Period size: 262 Copynumber: 2.6 Consensus size: 265
1753257 TCTACTTAAT
* * *
1753267 GGAAGATTGAATCGATGCATACTTGTTCCACTATCACT-AAGAGAATATCAAATCTTGAAATAGA
1 GGAAGATTGAATCGAGGCAGACTTGTTCCACTATCACTCAAGAGAATATCAAATCTTGAAAAAGA
* * * *
1753331 -GAGATCTATTTTACTTCTTCTTGAGGGAATATCAGATATTGTGACGTTGATTCATTCCACTGTT
66 TG-GATCTGTTTTGCTTCTTCTTGAGGGAAAATCAGAT-TTGGGACGTTGATTCATTCCACTGTT
* * *
1753395 ACTCAGAGAATATTGAATCGAGGCAGACTTGTTCACCTGTCACTAAGGGAATATCAAAACTTCAA
129 ACTCAGGGAAGATTGAATC-A-G-AGACTTGTTCACCTGTCACTAAGAGAATATCAAAACTTCAA
* * *
1753460 TAAGTGGAATATGTTCTGCTTCATCTTGAGGGAAAATCAAATTTGGGGATGTTGATTCATTCCAC
191 TAAGTAGAATATGTTCTGCTTCATCTTGAGGGAAAATCAAATATGGGGAAGTTGATTCATTCCAC
* *
1753525 TGTTACTTAA
256 TATTACTCAA
* * * * * * *
1753535 GGAAGTTTGAATCAAGGCAGACTTGTTCCACTGTTACTC-TGAGAATATCAAATCTTGAAAGATA
1 GGAAGATTGAATCGAGGCAGACTTGTTCCACTATCACTCAAGAGAATATCAAATCTTGAAAAAGA
* ** *
1753599 TGGATATGTTCCGCTTCTTCTTGAGGGAAAATCAGATTTGAGGACATTGATTCATTCCACTGTTA
66 TGGATCTGTTTTGCTTCTTCTTGAGGGAAAATCAGATTTG-GGACGTTGATTCATTCCACTGTTA
* * * * *
1753664 CTCAGGGAAGATTGAAT-A-A-ACTTGTTC-CATTGTTACTCAGAGAATATCAAATCTTGAA-AG
130 CTCAGGGAAGATTGAATCAGAGACTTGTTCAC-CTGTCACTAAGAGAATATCAAAACTTCAATA-
* * * * *
1753724 AGATAG-ATTTGTTTTGCTTCTTCTTGAGGGAAAATTAGATATGGGGAAGTTGATTCATTCCACT
193 AG-TAGAATATGTTCTGCTTCATCTTGAGGGAAAATCAAATATGGGGAAGTTGATTCATTCCACT
1753788 ATTACTCAA
257 ATTACTCAA
1753797 GGAAGATTGAATCGAGGCAGACTTGTTCCACTATCACTCAAG-GAATATCAAATCTTGAAAAAGA
1 GGAAGATTGAATCGAGGCAGACTTGTTCCACTATCACTCAAGAGAATATCAAATCTTGAAAAAGA
* * * *
1753861 TGGATCTGTTTTGCTTCTTCTTGAGGGAAAATAAGATATGGGGATGTTGATTCATTCCACTTTTA
66 TGGATCTGTTTTGCTTCTTCTTGAGGGAAAATCAGAT-TTGGGACGTTGATTCATTCCACTGTTA
*
1753926 CTCAAGGAAGATTGAATC
130 CTCAGGGAAGATTGAATC
1753944 GAGTTTGATT
Statistics
Matches: 349, Mismatches: 51, Indels: 23
0.83 0.12 0.05
Matches are distributed among these distances:
261 2 0.01
262 216 0.62
263 6 0.02
266 1 0.00
267 3 0.01
268 120 0.34
269 1 0.00
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.33
Consensus pattern (265 bp):
GGAAGATTGAATCGAGGCAGACTTGTTCCACTATCACTCAAGAGAATATCAAATCTTGAAAAAGA
TGGATCTGTTTTGCTTCTTCTTGAGGGAAAATCAGATTTGGGACGTTGATTCATTCCACTGTTAC
TCAGGGAAGATTGAATCAGAGACTTGTTCACCTGTCACTAAGAGAATATCAAAACTTCAATAAGT
AGAATATGTTCTGCTTCATCTTGAGGGAAAATCAAATATGGGGAAGTTGATTCATTCCACTATTA
CTCAA
Found at i:1760865 original size:131 final size:131
Alignment explanation
Indices: 1760647--1760959 Score: 333
Period size: 131 Copynumber: 2.4 Consensus size: 131
1760637 ACCTTTCGTA
* * * * *
1760647 CATTAAAACATTAATTTATTACCCCAATTGAAATTAAGAGATATTACTATTTCCTCTTAAAATTC
1 CATTAAAACAATCATTTATTACCCCAATTGAAATAAAAAGATATTACTATTTCCTCTTAAAAATC
* * * * * * * * *
1760712 AAAATCGATTCCAATGAAAACGATAATATCTAATGATTTTTAATCAATAATAAATTATCTTTCAT
66 AAAATCAATTCCAATGAAAACGACAATATCAAATGATTTATAACCAAGAATAAATGACCTCTCAT
1760777 G
131 G
* * * *
1760778 CATTAAAACAGTCATTTGTTACCCCAATTGAAATAAAAAGATATTGCTATTTCGTCTTAAAAATC
1 CATTAAAACAATCATTTATTACCCCAATTGAAATAAAAAGATATTACTATTTCCTCTTAAAAATC
* * * * *
1760843 AATATTAATT-TAA-GAGAGAACGACAATATCAAATTATTTATAACCGAGAATAAATGACCTCTC
66 AAAATCAATTCCAATGA-A-AACGACAATATCAAATGATTTATAACCAAGAATAAATGACCTCTC
1760906 ATG
129 ATG
* * * * * *
1760909 CCTTAAAGCAATCATTTATTACTCCGATCGAAATGAAAAGATATTACTATT
1 CATTAAAACAATCATTTATTACCCCAATTGAAATAAAAAGATATTACTATT
1760960 CTCAATAACA
Statistics
Matches: 149, Mismatches: 31, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
129 2 0.01
130 3 0.02
131 144 0.97
ACGTcount: A:0.42, C:0.15, G:0.09, T:0.34
Consensus pattern (131 bp):
CATTAAAACAATCATTTATTACCCCAATTGAAATAAAAAGATATTACTATTTCCTCTTAAAAATC
AAAATCAATTCCAATGAAAACGACAATATCAAATGATTTATAACCAAGAATAAATGACCTCTCAT
G
Found at i:1764135 original size:20 final size:20
Alignment explanation
Indices: 1764090--1764128 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
1764080 AACATTCAAT
*
1764090 AGTTTTGATGCTCGTGTGTG
1 AGTTTCGATGCTCGTGTGTG
1764110 AGTTTCGATGCTCGTGTGT
1 AGTTTCGATGCTCGTGTGT
1764129 TTGTTTCCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.10, C:0.13, G:0.33, T:0.44
Consensus pattern (20 bp):
AGTTTCGATGCTCGTGTGTG
Found at i:1764440 original size:18 final size:20
Alignment explanation
Indices: 1764398--1764442 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
1764388 AATAAATATT
*
1764398 TTTTAAATTATAAATATGAA
1 TTTTAAAATATAAATATGAA
*
1764418 TTTTAAAATGTAAAT-TG-A
1 TTTTAAAATATAAATATGAA
1764436 TTTTAAA
1 TTTTAAA
1764443 GATAAACTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 8 0.35
19 2 0.09
20 13 0.57
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (20 bp):
TTTTAAAATATAAATATGAA
Found at i:1768365 original size:16 final size:16
Alignment explanation
Indices: 1768346--1768377 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
1768336 CAAAATACCA
1768346 CTTAAATTCAATACTT
1 CTTAAATTCAATACTT
1768362 CTTAAATTCAATACTT
1 CTTAAATTCAATACTT
1768378 TATAATTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.19, G:0.00, T:0.44
Consensus pattern (16 bp):
CTTAAATTCAATACTT
Found at i:1771084 original size:39 final size:38
Alignment explanation
Indices: 1771001--1771104 Score: 113
Period size: 39 Copynumber: 2.7 Consensus size: 38
1770991 GTGCTCTTCA
* * *
1771001 GCTTTGTGCTCAAGGTAAGTCCTTACTGTAGGCTCATT
1 GCTTTGTGCTCAGGGTAAGACCTTACTGCAGGCTCATT
1771039 GTCTTTGTGCTCAGGGTAAGACCTTACTGCAGGCTTC-TCT
1 G-CTTTGTGCTCAGGGTAAGACCTTACTGCAGGC-TCAT-T
* *
1771079 GCTTTGAGCAT-AGGGTAAGCCCTTAC
1 GCTTTGTGC-TCAGGGTAAGACCTTAC
1771105 CAAGTGTACA
Statistics
Matches: 57, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
38 1 0.02
39 51 0.89
40 5 0.09
ACGTcount: A:0.18, C:0.23, G:0.25, T:0.34
Consensus pattern (38 bp):
GCTTTGTGCTCAGGGTAAGACCTTACTGCAGGCTCATT
Done.