Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008280.1 Hibiscus syriacus cultivar Beakdansim tig00110940_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: 3557051
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 7 of 17
Found at i:1458101 original size:11 final size:11
Alignment explanation
Indices: 1458085--1458111 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
1458075 CTATGTTTAC
1458085 TTTTTACTATA
1 TTTTTACTATA
1458096 TTTTTACTATA
1 TTTTTACTATA
1458107 TTTTT
1 TTTTT
1458112 CCTAACGTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.70
Consensus pattern (11 bp):
TTTTTACTATA
Found at i:1458225 original size:19 final size:19
Alignment explanation
Indices: 1458203--1458239 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1458193 ATTTTTCATT
*
1458203 TATTTATTATTATTATTAC
1 TATTTAGTATTATTATTAC
*
1458222 TATTTAGTATTTTTATTA
1 TATTTAGTATTATTATTA
1458240 TATATACATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.65
Consensus pattern (19 bp):
TATTTAGTATTATTATTAC
Found at i:1458274 original size:17 final size:18
Alignment explanation
Indices: 1458252--1458298 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 18
1458242 TATACATACA
1458252 TTTTTATTTTTATA-TAT
1 TTTTTATTTTTATACTAT
1458269 TTTTTATTATTTTATACTAT
1 TTTTTA-T-TTTTATACTAT
1458289 TTATTTATTT
1 TT-TTTATTT
1458299 CATTATATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
17 6 0.23
18 1 0.04
19 9 0.35
20 6 0.23
21 4 0.15
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTTATTTTTATACTAT
Found at i:1458278 original size:20 final size:21
Alignment explanation
Indices: 1458200--1458297 Score: 78
Period size: 20 Copynumber: 4.5 Consensus size: 21
1458190 TTTATTTTTC
1458200 ATTTATTTATTATTATTATTACT
1 ATTTATTTATTATT-TTA-TACT
*
1458223 ATTTAGTATTTTTATTATATATAC-
1 ATTTA-T-TTATTATT-T-TATACT
**
1458247 ATACATTT-TTATTTTTATA-T
1 ATTTATTTATTA-TTTTATACT
1458267 ATTT-TTTATTATTTTATACT
1 ATTTATTTATTATTTTATACT
1458287 ATTTATTTATT
1 ATTTATTTATT
1458298 TCATTATATT
Statistics
Matches: 62, Mismatches: 5, Indels: 18
0.73 0.06 0.21
Matches are distributed among these distances:
19 10 0.16
20 14 0.23
21 10 0.16
22 4 0.06
23 6 0.10
24 4 0.06
25 12 0.19
26 2 0.03
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (21 bp):
ATTTATTTATTATTTTATACT
Found at i:1459342 original size:59 final size:61
Alignment explanation
Indices: 1459249--1459368 Score: 226
Period size: 59 Copynumber: 2.0 Consensus size: 61
1459239 TTGGATCTTC
1459249 TTCATGAACTCTTCTCTCCTTTGTTTTACCTCTTTGCTTTAATAGTAACAAGTAATTGAAG
1 TTCATGAACTCTTCTCTCCTTTGTTTTACCTCTTTGCTTTAATAGTAACAAGTAATTGAAG
1459310 TTCATGAACTC-T-TCTCCTTTGTTTTACCTCTTTGCTTTAATAGTAACAAGTAATTGAAG
1 TTCATGAACTCTTCTCTCCTTTGTTTTACCTCTTTGCTTTAATAGTAACAAGTAATTGAAG
1459369 ATTATAAGAA
Statistics
Matches: 59, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
59 47 0.80
60 1 0.02
61 11 0.19
ACGTcount: A:0.25, C:0.19, G:0.12, T:0.44
Consensus pattern (61 bp):
TTCATGAACTCTTCTCTCCTTTGTTTTACCTCTTTGCTTTAATAGTAACAAGTAATTGAAG
Found at i:1460771 original size:17 final size:17
Alignment explanation
Indices: 1460749--1460782 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
1460739 GACCTCCATT
1460749 GAAGAAAAACTGAGGAA
1 GAAGAAAAACTGAGGAA
1460766 GAAGAAAAACTGAGGAA
1 GAAGAAAAACTGAGGAA
1460783 ATCTTGCGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.06, G:0.29, T:0.06
Consensus pattern (17 bp):
GAAGAAAAACTGAGGAA
Found at i:1462595 original size:141 final size:143
Alignment explanation
Indices: 1462440--1462724 Score: 531
Period size: 141 Copynumber: 2.0 Consensus size: 143
1462430 TATTATATAT
1462440 AAGTATGTTTAGTATTGATAGATTTTAATTGTAATGATATGTTGAAATATAAAAATAGATAAAAA
1 AAGTATGTTTAGTATTGATAGATTTTAATTGTAATGATATGTTGAAATATAAAAATAGATAAAAA
1462505 TATTTTTTTATTACAAAAGGGATTTAAATTAAAATAATTTAG-TTTATATAACATAAAAAA-T-A
66 TATTTTTTTATTACAAAAGGGATTTAAATTAAAATAATTTAGTTTTAT-TAACATAAAAAACTCA
1462567 TCCATATATACAGA
130 TCCATATATACAGA
1462581 AAGTATGTTTAGTATTGATAGATTTTAATTGTAATGATATGTTGAAATATAAAAATAGATAAAAA
1 AAGTATGTTTAGTATTGATAGATTTTAATTGTAATGATATGTTGAAATATAAAAATAGATAAAAA
1462646 TATTTTTTTATTACAAAAGGGATTTAAATTAAAATAATTTAGTTTTATTAACATAAAAAATCTCA
66 TATTTTTTTATTACAAAAGGGATTTAAATTAAAATAATTTAGTTTTATTAACATAAAAAA-CTCA
1462711 TCCATATATACAGA
130 TCCATATATACAGA
1462725 GAAACTGGCT
Statistics
Matches: 140, Mismatches: 0, Indels: 5
0.97 0.00 0.03
Matches are distributed among these distances:
141 119 0.85
142 5 0.04
143 1 0.01
144 15 0.11
ACGTcount: A:0.46, C:0.04, G:0.11, T:0.39
Consensus pattern (143 bp):
AAGTATGTTTAGTATTGATAGATTTTAATTGTAATGATATGTTGAAATATAAAAATAGATAAAAA
TATTTTTTTATTACAAAAGGGATTTAAATTAAAATAATTTAGTTTTATTAACATAAAAAACTCAT
CCATATATACAGA
Found at i:1463949 original size:21 final size:21
Alignment explanation
Indices: 1463925--1463988 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 21
1463915 TCAACCCATT
1463925 AACCTTTAAATGTAACACCCC
1 AACCTTTAAATGTAACACCCC
** * **
1463946 AACCCGTACATG--AC-CCAA
1 AACCTTTAAATGTAACACCCC
1463964 AACCTTTAAATGTAACACCCC
1 AACCTTTAAATGTAACACCCC
1463985 AACC
1 AACC
1463989 CGTACATGAC
Statistics
Matches: 30, Mismatches: 10, Indels: 6
0.65 0.22 0.13
Matches are distributed among these distances:
18 11 0.37
19 2 0.07
20 2 0.07
21 15 0.50
ACGTcount: A:0.39, C:0.36, G:0.06, T:0.19
Consensus pattern (21 bp):
AACCTTTAAATGTAACACCCC
Found at i:1463973 original size:39 final size:39
Alignment explanation
Indices: 1463925--1464003 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
1463915 TCAACCCATT
1463925 AACCTTTAAATGTAACACCCCAACCCGTACATGACCCAA
1 AACCTTTAAATGTAACACCCCAACCCGTACATGACCCAA
1463964 AACCTTTAAATGTAACACCCCAACCCGTACATGACCCAA
1 AACCTTTAAATGTAACACCCCAACCCGTACATGACCCAA
1464003 A
1 A
1464004 TACGAGTTCG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.39, C:0.35, G:0.08, T:0.18
Consensus pattern (39 bp):
AACCTTTAAATGTAACACCCCAACCCGTACATGACCCAA
Found at i:1465064 original size:21 final size:23
Alignment explanation
Indices: 1465025--1465066 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
1465015 GTACCCATGT
*
1465025 CATTTCTCTTGTGATCACATATA
1 CATTTCTCTTCTGATCACATATA
1465048 CATTT-TCTTCTG-TCACATA
1 CATTTCTCTTCTGATCACATA
1465067 CCACATGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 6 0.33
23 5 0.28
ACGTcount: A:0.24, C:0.24, G:0.07, T:0.45
Consensus pattern (23 bp):
CATTTCTCTTCTGATCACATATA
Found at i:1465072 original size:22 final size:23
Alignment explanation
Indices: 1465025--1465072 Score: 55
Period size: 22 Copynumber: 2.1 Consensus size: 23
1465015 GTACCCATGT
* *
1465025 CATTTCTCTTGTGATCACATATA
1 CATTTCTCTTCTGATCACATACA
1465048 CATTT-TCTTCTG-TCACATACCA
1 CATTTCTCTTCTGATCACATA-CA
1465070 CAT
1 CAT
1465073 GTATGTGTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 7 0.32
22 10 0.45
23 5 0.23
ACGTcount: A:0.25, C:0.27, G:0.06, T:0.42
Consensus pattern (23 bp):
CATTTCTCTTCTGATCACATACA
Found at i:1476351 original size:16 final size:16
Alignment explanation
Indices: 1476309--1476351 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
1476299 CATTTTGTTA
1476309 GTATTTATTTAATTATT
1 GTATTT-TTTAATTATT
* *
1476326 GTATTATTTAATTTTT
1 GTATTTTTTAATTATT
*
1476342 TTATTTTTTA
1 GTATTTTTTA
1476352 TTTAATTATT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 17 0.77
17 5 0.23
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.70
Consensus pattern (16 bp):
GTATTTTTTAATTATT
Found at i:1476368 original size:20 final size:20
Alignment explanation
Indices: 1476310--1476371 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 20
1476300 ATTTTGTTAG
* * * *
1476310 TATTTATTTAATTATTGTAT
1 TATTTAATTATTTATTTTTT
*
1476330 TATTTAATT-TTTTTATTTTT
1 TATTTAATTATTTAT-TTTTT
1476350 TATTTAATTATTTATTTTTT
1 TATTTAATTATTTATTTTTT
1476370 TA
1 TA
1476372 CAGTTAAAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
19 3 0.09
20 27 0.79
21 4 0.12
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.73
Consensus pattern (20 bp):
TATTTAATTATTTATTTTTT
Found at i:1476658 original size:12 final size:12
Alignment explanation
Indices: 1476621--1476673 Score: 56
Period size: 12 Copynumber: 4.4 Consensus size: 12
1476611 AACTGCAAAA
1476621 AAATAAAATAATT
1 AAATAAAATAA-T
1476634 AAATAAAATAAT
1 AAATAAAATAAT
*
1476646 AAA-ATAATAA-
1 AAATAAAATAAT
1476656 ATAATAAAATAAT
1 A-AATAAAATAAT
*
1476669 TAATA
1 AAATA
1476674 CAAAATATGA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
10 1 0.03
11 8 0.24
12 14 0.41
13 11 0.32
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (12 bp):
AAATAAAATAAT
Found at i:1476659 original size:15 final size:15
Alignment explanation
Indices: 1476626--1476673 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
1476616 CAAAAAAATA
*
1476626 AAATAATTAAAT-A-
1 AAATAATAAAATAAT
1476639 AAATAATAAAATAAT
1 AAATAATAAAATAAT
1476654 AAATAATAAAATAAT
1 AAATAATAAAATAAT
*
1476669 TAATA
1 AAATA
1476674 CAAAATATGA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
13 11 0.35
14 1 0.03
15 19 0.61
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
AAATAATAAAATAAT
Found at i:1478877 original size:12 final size:12
Alignment explanation
Indices: 1478860--1478887 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
1478850 TGGTCAAGTG
1478860 TTAATATAGATC
1 TTAATATAGATC
1478872 TTAATATAGATC
1 TTAATATAGATC
1478884 TTAA
1 TTAA
1478888 AGTACATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (12 bp):
TTAATATAGATC
Found at i:1479151 original size:132 final size:130
Alignment explanation
Indices: 1478906--1479167 Score: 400
Period size: 132 Copynumber: 2.0 Consensus size: 130
1478896 AAACACCATA
* ** *
1478906 ATAAAAGACATAATTAAAGTTTAGAAACAAAAATGACAAACACATAATGTTTTTGTTCTTTGGCA
1 ATAAAACACATAATTAAAGCCTAGAAACAAAAATGACAAACACATAATATTTTTGTTCTTTGGCA
* *
1478971 CAATATTATAAAATTTTAGACAATACTTGTGACATCTGATACTCCAGTATTACAATCATCATTCT
66 CAACATTATAAAATTTAAGACAATACTTGTGACATCTGATACTCCAGTATTACAA-CATCATTCT
1479036 C
130 C
**
1479037 ATAAAACACCATAATTAAAGCCTAGAAACATGAATGACAAACACATAATATTTTTGTTCTTTGGC
1 ATAAAACA-CATAATTAAAGCCTAGAAACAAAAATGACAAACACATAATATTTTTGTTCTTTGGC
* *
1479102 ACAACATTCTCAAATTTCAAG-CAATACTTGTGACATCTGATACTCCAGTATTACAACATCATTC
65 ACAACATTATAAAATTT-AAGACAATACTTGTGACATCTGATACTCCAGTATTACAACATCATTC
1479166 TC
129 TC
1479168 TATTTCTTCC
Statistics
Matches: 119, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
131 17 0.14
132 100 0.84
133 2 0.02
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (130 bp):
ATAAAACACATAATTAAAGCCTAGAAACAAAAATGACAAACACATAATATTTTTGTTCTTTGGCA
CAACATTATAAAATTTAAGACAATACTTGTGACATCTGATACTCCAGTATTACAACATCATTCTC
Found at i:1482240 original size:30 final size:30
Alignment explanation
Indices: 1482206--1482299 Score: 116
Period size: 31 Copynumber: 3.1 Consensus size: 30
1482196 AGAGGTCATA
* * *
1482206 AAGAACCTCGGCAACTGTCCATAGGTCCCG
1 AAGAACCTAGGAAACTGTCCATATGTCCCG
* *
1482236 AAGAACCTAGATAAACTATCCATATGTCCCG
1 AAGAACCTAG-GAAACTGTCCATATGTCCCG
*
1482267 AAGAACATAGGTAAACTGTCCATATGTCCCG
1 AAGAACCTAGG-AAACTGTCCATATGTCCCG
1482298 AA
1 AA
1482300 AGACATAGGT
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
30 9 0.17
31 45 0.83
ACGTcount: A:0.35, C:0.27, G:0.18, T:0.20
Consensus pattern (30 bp):
AAGAACCTAGGAAACTGTCCATATGTCCCG
Found at i:1482265 original size:31 final size:31
Alignment explanation
Indices: 1482218--1482313 Score: 131
Period size: 31 Copynumber: 3.1 Consensus size: 31
1482208 GAACCTCGGC
* *
1482218 AACTGTCCATAGGTCCCGAAGAACCTAGATA
1 AACTGTCCATATGTCCCGAAGAACATAGATA
* *
1482249 AACTATCCATATGTCCCGAAGAACATAGGTA
1 AACTGTCCATATGTCCCGAAGAACATAGATA
*
1482280 AACTGTCCATATGTCCCGAA-AGACATAGGTA
1 AACTGTCCATATGTCCCGAAGA-ACATAGATA
1482311 AAC
1 AAC
1482314 CCTCGACTCT
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
30 1 0.02
31 58 0.98
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.21
Consensus pattern (31 bp):
AACTGTCCATATGTCCCGAAGAACATAGATA
Found at i:1487363 original size:31 final size:31
Alignment explanation
Indices: 1487316--1487411 Score: 95
Period size: 31 Copynumber: 3.1 Consensus size: 31
1487306 GAACCTCAGC
* * *
1487316 AACTATCCAAAGGTCCCAAAGAACCTAGGTA
1 AACTATCCATATGTCCCAAAGAACATAGGTA
* ** *
1487347 AACTATCTATATGTCCCGTAGAACATAAGTA
1 AACTATCCATATGTCCCAAAGAACATAGGTA
* *
1487378 AATTGTCCATATGTCCCGAAAG-ACATAGGTA
1 AACTATCCATATGTCCC-AAAGAACATAGGTA
1487409 AAC
1 AAC
1487412 CCTCGACTCT
Statistics
Matches: 50, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
31 48 0.96
32 2 0.04
ACGTcount: A:0.40, C:0.22, G:0.16, T:0.23
Consensus pattern (31 bp):
AACTATCCATATGTCCCAAAGAACATAGGTA
Found at i:1491984 original size:3 final size:3
Alignment explanation
Indices: 1491976--1492006 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
1491966 CTATATTACT
*
1491976 TGA TGA TGA TGA TGG TGA TGA TGA TGA TGA T
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA T
1492007 AAAGGAATCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.29, C:0.00, G:0.35, T:0.35
Consensus pattern (3 bp):
TGA
Found at i:1495834 original size:36 final size:36
Alignment explanation
Indices: 1495792--1495867 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
1495782 TATAGCTAAA
*
1495792 AAAAATCGTCTTTATTCGAATTTTGCCAAAAATAGC
1 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
1495828 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
1 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
1495864 AAAA
1 AAAA
1495868 TCCCGAAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (36 bp):
AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
Found at i:1500263 original size:15 final size:15
Alignment explanation
Indices: 1500243--1500272 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
1500233 CCACGGTGCT
1500243 CCCGGAATCCTGCGC
1 CCCGGAATCCTGCGC
1500258 CCCGGAATCCTGCGC
1 CCCGGAATCCTGCGC
1500273 GATTGTGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.47, G:0.27, T:0.13
Consensus pattern (15 bp):
CCCGGAATCCTGCGC
Found at i:1500735 original size:36 final size:36
Alignment explanation
Indices: 1500693--1500768 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
1500683 TATAGCTAAA
*
1500693 AAAAATCGTCTTTATTCGAATTTTGCCAAAAATAGC
1 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
1500729 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
1 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
1500765 AAAA
1 AAAA
1500769 TCCCGAAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (36 bp):
AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
Found at i:1502877 original size:17 final size:17
Alignment explanation
Indices: 1502855--1502891 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
1502845 ATGTAAACGC
*
1502855 AAAAATTATATATACTA
1 AAAAATAATATATACTA
1502872 AAAAATAATATATACTA
1 AAAAATAATATATACTA
1502889 AAA
1 AAA
1502892 TCATGTTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (17 bp):
AAAAATAATATATACTA
Found at i:1506553 original size:3 final size:3
Alignment explanation
Indices: 1506545--1506569 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
1506535 AGAATGAAAA
1506545 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
1506570 ATTTAAGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:1506895 original size:21 final size:21
Alignment explanation
Indices: 1506850--1506897 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
1506840 AATATATGAT
* **
1506850 ATTAACGTGACGATTCATATT
1 ATTAATGTGACGATTCATAAA
*
1506871 ATTAATGTGACGATTTATAAA
1 ATTAATGTGACGATTCATAAA
1506892 ATTAAT
1 ATTAAT
1506898 ATAACTATTC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.40
Consensus pattern (21 bp):
ATTAATGTGACGATTCATAAA
Found at i:1507636 original size:26 final size:25
Alignment explanation
Indices: 1507607--1507676 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
1507597 TTTCATCTCC
1507607 TAAAATTTTATAAAATTATTTCTTTT
1 TAAAATTTTATAAAATTATTT-TTTT
*
1507633 TAAAATTTTATAAAATTAATTTTTT
1 TAAAATTTTATAAAATTATTTTTTT
*
1507658 TAAAATTTTATAAATTTAT
1 TAAAATTTTATAAAATTAT
1507677 CGTCTAACAT
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
25 21 0.51
26 20 0.49
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (25 bp):
TAAAATTTTATAAAATTATTTTTTT
Found at i:1507663 original size:25 final size:26
Alignment explanation
Indices: 1507607--1507671 Score: 114
Period size: 26 Copynumber: 2.5 Consensus size: 26
1507597 TTTCATCTCC
*
1507607 TAAAATTTTATAAAATTATTTCTTTT
1 TAAAATTTTATAAAATTAATTCTTTT
1507633 TAAAATTTTATAAAATTAATT-TTTT
1 TAAAATTTTATAAAATTAATTCTTTT
1507658 TAAAATTTTATAAA
1 TAAAATTTTATAAA
1507672 TTTATCGTCT
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
25 18 0.47
26 20 0.53
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.54
Consensus pattern (26 bp):
TAAAATTTTATAAAATTAATTCTTTT
Found at i:1524254 original size:108 final size:110
Alignment explanation
Indices: 1524065--1524284 Score: 392
Period size: 108 Copynumber: 2.0 Consensus size: 110
1524055 CTCCCATCTA
1524065 GAGCTTCCTCTTCATTTTCTTAGATAGGCATAGATGGTGTTTGTTACTGCTCATGAAGCTCGGAG
1 GAGCTTCCTCTTCATTTTCTTAGATAGGCATAGATGGTGTTTGTTACTGCTCATGAAGCTCGGAG
1524130 GATCTTTCTTCGAG-AAAA-ATCCTGGGTTTATCACTGCTTACCT
66 GATCTTTCTTCGAGAAAAAGATCCTGGGTTTATCACTGCTTACCT
* *
1524173 GAGCTTCCTCTTCATTTTCTTAGATGGGCATAGATGGTGTTTG-TACGTGCTCGTGAAGCTCGGA
1 GAGCTTCCTCTTCATTTTCTTAGATAGGCATAGATGGTGTTTGTTAC-TGCTCATGAAGCTCGGA
1524237 GGATCTTTCTTCGAGAAAAAGATCCTGGGTTTATCACTGCTTACCT
65 GGATCTTTCTTCGAGAAAAAGATCCTGGGTTTATCACTGCTTACCT
1524283 GA
1 GA
1524285 TGCCCTAATC
Statistics
Matches: 107, Mismatches: 2, Indels: 4
0.95 0.02 0.04
Matches are distributed among these distances:
107 3 0.03
108 73 0.68
109 4 0.04
110 27 0.25
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.36
Consensus pattern (110 bp):
GAGCTTCCTCTTCATTTTCTTAGATAGGCATAGATGGTGTTTGTTACTGCTCATGAAGCTCGGAG
GATCTTTCTTCGAGAAAAAGATCCTGGGTTTATCACTGCTTACCT
Found at i:1526514 original size:183 final size:186
Alignment explanation
Indices: 1526206--1526574 Score: 701
Period size: 183 Copynumber: 2.0 Consensus size: 186
1526196 TTGTGATTTC
1526206 TGGTAACCATTGCTGTTATAATCTGACATTGAAAGAATCAACTTCAGAAAATAGGCTAAACATTT
1 TGGTAACCATTGCTGTTATAATCTGACATTGAAAGAATCAACTTCAGAAAATAGGCTAAACATTT
1526271 AAACTTTGGATGATATCAAATTATATTGCTCTTTCTATCCCCCTAAATGCAAGATATGTAT-TTC
66 AAACTTTGGATGATATCAAATTATATTGCTCTTTCTATCCCCCTAAATGCAAGATATGTATATTC
1526335 TTTTCATTGTTTTCGCATTTGATTTGAAAGAG-A-ATATATATAAATATTTGTCTT
131 TTTTCATTGTTTTCGCATTTGATTTGAAAGAGAATATATATATAAATATTTGTCTT
1526389 TGGTAACCATTGACTGTTATAATCTGACATTGAAAGAATCAACTTCAG-AAATAGGCTAAACATT
1 TGGTAACCATTG-CTGTTATAATCTGACATTGAAAGAATCAACTTCAGAAAATAGGCTAAACATT
1526453 TAAACTTTGGATGATATCAAATTATATTGCTCTTTCTATCCCCCTAAATGCAAGATATGTATATT
65 TAAACTTTGGATGATATCAAATTATATTGCTCTTTCTATCCCCCTAAATGCAAGATATGTATATT
1526518 CTTTTCATTGTTTTCGCATTTGATTTGAAAGAGAATATATATATAAATATTTGTCTT
130 CTTTTCATTGTTTTCGCATTTGATTTGAAAGAGAATATATATATAAATATTTGTCTT
1526575 CATTTTCCCA
Statistics
Matches: 182, Mismatches: 0, Indels: 5
0.97 0.00 0.03
Matches are distributed among these distances:
183 90 0.49
184 70 0.38
185 1 0.01
186 21 0.12
ACGTcount: A:0.34, C:0.14, G:0.13, T:0.39
Consensus pattern (186 bp):
TGGTAACCATTGCTGTTATAATCTGACATTGAAAGAATCAACTTCAGAAAATAGGCTAAACATTT
AAACTTTGGATGATATCAAATTATATTGCTCTTTCTATCCCCCTAAATGCAAGATATGTATATTC
TTTTCATTGTTTTCGCATTTGATTTGAAAGAGAATATATATATAAATATTTGTCTT
Found at i:1535057 original size:23 final size:24
Alignment explanation
Indices: 1535022--1535066 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
1535012 TGTATAAAAT
1535022 ACATTACTATATACAAACTATAAG
1 ACATTACTATATACAAACTATAAG
* *
1535046 ACATTA-TATATATACACTATA
1 ACATTACTATATACAAACTATA
1535067 TAATATAAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (24 bp):
ACATTACTATATACAAACTATAAG
Found at i:1535481 original size:2 final size:2
Alignment explanation
Indices: 1535474--1535501 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1535464 AATATCAAAT
1535474 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
1535502 CTAACAATGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1542426 original size:16 final size:16
Alignment explanation
Indices: 1542396--1542441 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
1542386 TTTTAGTAAT
1542396 TTATTTAATTATTTTAA
1 TTATTTAA-TATTTTAA
*
1542413 TTATTTAATATTTTAT
1 TTATTTAATATTTTAA
*
1542429 TTAATTAAT-TTTT
1 TTATTTAATATTTT
1542442 TTTGCAGATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
15 4 0.15
16 15 0.56
17 8 0.30
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TTATTTAATATTTTAA
Found at i:1551659 original size:12 final size:12
Alignment explanation
Indices: 1551630--1551721 Score: 56
Period size: 12 Copynumber: 8.3 Consensus size: 12
1551620 AGTTATTAAA
1551630 ATATTTAA-AAT
1 ATATTTAATAAT
*
1551641 ATATTTATTAAT
1 ATATTTAATAAT
*
1551653 ATTTTTAATAAT
1 ATATTTAATAAT
* *
1551665 ATA-AT-ATCAT
1 ATATTTAATAAT
*
1551675 AT-GTT-ATAAT
1 ATATTTAATAAT
*
1551685 AT-TATAATAAT
1 ATATTTAATAAT
*
1551696 ATATTCAAT-A-
1 ATATTTAATAAT
*
1551706 ATATTAAATAAT
1 ATATTTAATAAT
1551718 ATAT
1 ATAT
1551722 GATATTATAT
Statistics
Matches: 62, Mismatches: 13, Indels: 11
0.72 0.15 0.13
Matches are distributed among these distances:
10 22 0.35
11 17 0.27
12 23 0.37
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.48
Consensus pattern (12 bp):
ATATTTAATAAT
Found at i:1551659 original size:23 final size:23
Alignment explanation
Indices: 1551611--1551667 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
1551601 ATCATTTTAA
1551611 TAAAATATTAGTTATTAAAATATT
1 TAAAATA-TAGTTATTAAAATATT
* * *
1551635 TAAAATATATTTATTAATATTTT
1 TAAAATATAGTTATTAAAATATT
1551658 TAATAATATA
1 TAA-AATATA
1551668 ATATCATATG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 16 0.55
24 13 0.45
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (23 bp):
TAAAATATAGTTATTAAAATATT
Found at i:1551699 original size:23 final size:23
Alignment explanation
Indices: 1551658--1551732 Score: 75
Period size: 23 Copynumber: 3.3 Consensus size: 23
1551648 TTAATATTTT
*
1551658 TAATAATATAAT-ATCATATGTTA
1 TAATATTATAATAAT-ATATGTTA
*
1551681 TAATATTATAATAATATAT-TCAA
1 TAATATTATAATAATATATGT-TA
*
1551704 TAATATTA-AATAATATATGATA
1 TAATATTATAATAATATATGTTA
*
1551726 TTATATT
1 TAATATT
1551733 CTTATTTTAA
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
22 18 0.41
23 24 0.55
24 2 0.05
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.45
Consensus pattern (23 bp):
TAATATTATAATAATATATGTTA
Found at i:1552073 original size:22 final size:22
Alignment explanation
Indices: 1552048--1552111 Score: 69
Period size: 22 Copynumber: 2.8 Consensus size: 22
1552038 AAAAATACTA
1552048 TTAAATAAAATATT-TTAATATT
1 TTAAATAAAATATTATTAA-ATT
1552070 TTAAA-AATAATATTATTAAATT
1 TTAAATAA-AATATTATTAAATT
1552092 TTATAATAAATAATATTATT
1 TTA-AAT-AA-AATATTATT
1552112 TATTATATTT
Statistics
Matches: 37, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
21 2 0.05
22 17 0.46
23 6 0.16
25 12 0.32
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
TTAAATAAAATATTATTAAATT
Found at i:1552079 original size:24 final size:22
Alignment explanation
Indices: 1552048--1552111 Score: 69
Period size: 25 Copynumber: 2.8 Consensus size: 22
1552038 AAAAATACTA
1552048 TTAAATAA-AATATT-TTAATATT
1 TTAAA-AATAATATTATTAA-ATT
1552070 TTAAAAATAATATTATTAAATTT
1 TTAAAAATAATATTATTAAA-TT
1552093 TATAATAAATAATATTATT
1 T-TAA-AAATAATATTATT
1552112 TATTATATTT
Statistics
Matches: 37, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
21 2 0.05
22 12 0.32
23 7 0.19
24 3 0.08
25 13 0.35
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
TTAAAAATAATATTATTAAATT
Found at i:1552117 original size:22 final size:22
Alignment explanation
Indices: 1552056--1552118 Score: 58
Period size: 25 Copynumber: 2.8 Consensus size: 22
1552046 TATTAAATAA
*
1552056 AATATT-TTAATATTTTAAAAAT
1 AATATTATT-ATATTATAAAAAT
*
1552078 AATATTATTAAATTTTATAATAAAT
1 AATATTATT--ATATTATAA-AAAT
1552103 AATATTATT-TATTATA
1 AATATTATTATATTATA
1552119 TTTTATATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
22 12 0.34
23 2 0.06
24 8 0.23
25 13 0.37
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
AATATTATTATATTATAAAAAT
Found at i:1552168 original size:18 final size:19
Alignment explanation
Indices: 1552144--1552182 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
1552134 AAACAATTTC
*
1552144 TAAAAATTA-TTAAT-TAA
1 TAAAAAATAGTTAATATAA
1552161 TAAAAAATAGTTAATATAA
1 TAAAAAATAGTTAATATAA
1552180 TAA
1 TAA
1552183 TTTTTAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 8 0.42
18 5 0.26
19 6 0.32
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (19 bp):
TAAAAAATAGTTAATATAA
Found at i:1562131 original size:631 final size:631
Alignment explanation
Indices: 1560912--1562571 Score: 2849
Period size: 631 Copynumber: 2.6 Consensus size: 631
1560902 TGTAACTTGT
* *
1560912 AGATAGAGGAGAAATCTCTATTAAAGATAGGATACACA-GCGTAAAAGACTCATCGAGTCATTCA
1 AGATAGAGGAGAACTCTCTATTAAAGATAGGATATA-AGGCGTAAAAGACTCATCGAGTCATTCA
* * *
1560976 TTTTATATATTAATGTAACACTAGAACATTCTCACTTTAACACAGCTCAGTTTAATA-TACTGGG
65 TTTTATATATTAATGTAACACTAGAGCATTCTCTCTTTAACACAGCTCAGATTAATATTA-TGGG
* * * * *
1561040 TTCCAATAAAAGCCTACTTACCGACGTAGGAAAAAAGGATAATGACATGGGTTCTCGTAAAATCC
129 TTCCAATAAAAGGCTAATTACCGACGTAGGAAAAAAGGGTAATGATATGGGTTCTCGTAAAAGCC
* * *
1561105 TAATTCCAGACGTAGGTAATAAGGCTTACAATCCTGTTACTTAGGGTTACCATTTGAGTTCCCCT
194 TAATTCCAGAGGTAGGTAATAAGGCTTACAATCCTGTTACTTAGGGTTACCGTATGAGTTCCCCT
*
1561170 AAAATCCTGCTAGGCGTGAACATTGTCACCTTCTTCTTGAAATGGATCAAAAGAACAGGTGGTGG
259 AAAATCCTGCTAGGCGTGGACATTGTCACCTTCTTCTTGAAATGGATCAAAAGAACAGGTGGTGG
*
1561235 GGTCCACCTTCCCGGGACGTTTTATTAGGTAGATTCTCTCTCTGTTACAAACTGAAGCTTTGGTC
324 GGTCCACCTTCCCGGGACGTTTTATTAGGTAGATTCTCTCTCTGCTACAAACTGAAGCTTTGGTC
*
1561300 TTTAGTGACAGAGAAAGTTTAATCTGTTGTGTCTGATTGTTGGACTTTGAATCCACTGTTAGTTG
389 TTTAGTGACAGAGAAAGTTTAATCTGATGTGTCTGATTGTTGGACTTTGAATCCACTGTTAGTTG
1561365 ATGGTATACTTTACCTCTTGTCAAGTCACAAGCTATTTTGATTTGGAATTAGTACAACCACAACC
454 ATGGTATACTTTACCTCTTGTCAAGTCACAAGCTATTTTGATTTGGAATTAGTACAACCACAACC
*
1561430 AATAACTCTTTCAACTACAGTTTCTTGCACTGATTGCTTTGAGCCATCTCGAGTTGGGTTTCTGC
519 AATAACTCTTTCAACTACAGTTTCTTGCACTGATTGCTTTGAGCCATCTAGAGTTGGGTTTCTGC
* *
1561495 TGTCAATAAGGTTGTTCAGCCGATTGGATTCTTGTGAATGCAACTTTC
584 TGTCAATAAGGTTGTTCAGCCGATTGGATTCTTGGGAATACAACTTTC
* *
1561543 AGATAAAGTAGAACTCTCTATTAAAGATAGGATATAAGGCGTAAAAGACTCATCGAGTCATTCAT
1 AGATAGAGGAGAACTCTCTATTAAAGATAGGATATAAGGCGTAAAAGACTCATCGAGTCATTCAT
* *
1561608 TTTATATATTAATGTAACACTAGAGCATTATCTCTTTAACACAACTCAGATTAATATTATGGGTT
66 TTTATATATTAATGTAACACTAGAGCATTCTCTCTTTAACACAGCTCAGATTAATATTATGGGTT
*
1561673 CCAATAAAAGGCTAATTACCGACGTAGGAAAAAAGGGTAATTATATGGGTTCTCGTAAAAGCCTA
131 CCAATAAAAGGCTAATTACCGACGTAGGAAAAAAGGGTAATGATATGGGTTCTCGTAAAAGCCTA
1561738 ATTCCAGAGGTAGGTAATAAGGCTTACAATCCTGTTACTTAGGGTTACCGTATGAGTTCCCCTAA
196 ATTCCAGAGGTAGGTAATAAGGCTTACAATCCTGTTACTTAGGGTTACCGTATGAGTTCCCCTAA
*
1561803 AATCCTGCTAGGCGTGGACATTGTCACATTCTTCTTGAAATGGATCAAAAGAACAGGTGGTGGGG
261 AATCCTGCTAGGCGTGGACATTGTCACCTTCTTCTTGAAATGGATCAAAAGAACAGGTGGTGGGG
*
1561868 TCCACCTTCCCGGGACGTTTTATTAGGTAGATTCTCTCTCTGCTACAAACTGAAGCTTTGGTATT
326 TCCACCTTCCCGGGACGTTTTATTAGGTAGATTCTCTCTCTGCTACAAACTGAAGCTTTGGTCTT
*
1561933 TAGTGACAGAGAAAGTTTAATCTGATGTGTTTGATTGTTGGACTTTGAATCCACTGTTAGTTGAT
391 TAGTGACAGAGAAAGTTTAATCTGATGTGTCTGATTGTTGGACTTTGAATCCACTGTTAGTTGAT
* * *
1561998 GGTATACTTTACCTCTTGTCAAGTCACAAGCTATTTTGATTTTGAATTAGTACAGCTACAACCAA
456 GGTATACTTTACCTCTTGTCAAGTCACAAGCTATTTTGATTTGGAATTAGTACAACCACAACCAA
* * *
1562063 TAACTC-TTCTAACTACAGTTTCTTGCGCTGATTGCTTTGAGCCATCTAGTGTTGGGTTTCTTCT
521 TAACTCTTTC-AACTACAGTTTCTTGCACTGATTGCTTTGAGCCATCTAGAGTTGGGTTTCTGCT
1562127 GTCAATAAGGTTGTTCAGCCGATTGGATTCTTGGGAATACAACTTTC
585 GTCAATAAGGTTGTTCAGCCGATTGGATTCTTGGGAATACAACTTTC
* *
1562174 AGATAGAGGAGAACTCTCTATTAAAGATAGGATATACGGCGCAAAAGACTCATCGAGTCATTCAT
1 AGATAGAGGAGAACTCTCTATTAAAGATAGGATATAAGGCGTAAAAGACTCATCGAGTCATTCAT
*
1562239 TTTATATATTAATGTAACACTAGAGCATTCTCTCTTTAACACAGCTCAGATTAATATTTTGGGTT
66 TTTATATATTAATGTAACACTAGAGCATTCTCTCTTTAACACAGCTCAGATTAATATTATGGGTT
*
1562304 CCAATAAAAGGCTAATTACCGACGTAGGAAACAAGGGTAATGATATGGGTTCTCGTAAAAGCCTA
131 CCAATAAAAGGCTAATTACCGACGTAGGAAAAAAGGGTAATGATATGGGTTCTCGTAAAAGCCTA
* ** * *
1562369 ATTCCAGAGGTAGGAAATAAAACTTATAATCCTATTACTTAGGGTTACCGTATGAGTTCCCCTAA
196 ATTCCAGAGGTAGGTAATAAGGCTTACAATCCTGTTACTTAGGGTTACCGTATGAGTTCCCCTAA
*
1562434 AATCCTGCTAGGCGTGGACATTGTCACCTTCTTCTTGAAATTGATCAAAAGAACAGGTGGTGGGG
261 AATCCTGCTAGGCGTGGACATTGTCACCTTCTTCTTGAAATGGATCAAAAGAACAGGTGGTGGGG
* * *
1562499 TCCACCTTCCCGGGATGTTTTATTAGGTAGATTTTCTCTCTGCTACAAACTAAAGCTTTGGTCTT
326 TCCACCTTCCCGGGACGTTTTATTAGGTAGATTCTCTCTCTGCTACAAACTGAAGCTTTGGTCTT
*
1562564 TCGTGACA
391 TAGTGACA
1562572 TAATTTTATA
Statistics
Matches: 972, Mismatches: 54, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
630 4 0.00
631 966 0.99
632 2 0.00
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.33
Consensus pattern (631 bp):
AGATAGAGGAGAACTCTCTATTAAAGATAGGATATAAGGCGTAAAAGACTCATCGAGTCATTCAT
TTTATATATTAATGTAACACTAGAGCATTCTCTCTTTAACACAGCTCAGATTAATATTATGGGTT
CCAATAAAAGGCTAATTACCGACGTAGGAAAAAAGGGTAATGATATGGGTTCTCGTAAAAGCCTA
ATTCCAGAGGTAGGTAATAAGGCTTACAATCCTGTTACTTAGGGTTACCGTATGAGTTCCCCTAA
AATCCTGCTAGGCGTGGACATTGTCACCTTCTTCTTGAAATGGATCAAAAGAACAGGTGGTGGGG
TCCACCTTCCCGGGACGTTTTATTAGGTAGATTCTCTCTCTGCTACAAACTGAAGCTTTGGTCTT
TAGTGACAGAGAAAGTTTAATCTGATGTGTCTGATTGTTGGACTTTGAATCCACTGTTAGTTGAT
GGTATACTTTACCTCTTGTCAAGTCACAAGCTATTTTGATTTGGAATTAGTACAACCACAACCAA
TAACTCTTTCAACTACAGTTTCTTGCACTGATTGCTTTGAGCCATCTAGAGTTGGGTTTCTGCTG
TCAATAAGGTTGTTCAGCCGATTGGATTCTTGGGAATACAACTTTC
Found at i:1563059 original size:16 final size:16
Alignment explanation
Indices: 1563038--1563069 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
1563028 TCCTGAAAGT
1563038 TTTTTGAGTTCGAGTC
1 TTTTTGAGTTCGAGTC
1563054 TTTTTGAGTTCGAGTC
1 TTTTTGAGTTCGAGTC
1563070 GAGTTTCAAT
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:0.12, C:0.12, G:0.25, T:0.50
Consensus pattern (16 bp):
TTTTTGAGTTCGAGTC
Found at i:1563697 original size:21 final size:21
Alignment explanation
Indices: 1563671--1563725 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
1563661 TGATGTTGAG
1563671 CCCGACGTTGAAGCCAAAGAA
1 CCCGACGTTGAAGCCAAAGAA
*
1563692 CCCGACGTTGAAGCCGAAGAA
1 CCCGACGTTGAAGCCAAAGAA
1563713 CCCGACGTTGAAG
1 CCCGACGTTGAAG
1563726 AGGTAAACCC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.33, C:0.29, G:0.27, T:0.11
Consensus pattern (21 bp):
CCCGACGTTGAAGCCAAAGAA
Found at i:1565162 original size:21 final size:23
Alignment explanation
Indices: 1565113--1565173 Score: 67
Period size: 22 Copynumber: 2.8 Consensus size: 23
1565103 TATTATGCAC
* *
1565113 GTTTCCTCTTCTTTTTCTCCGTT
1 GTTTCATCTTCTCTTTCTCCGTT
1565136 -TTTCATCTTCTCTTT-TCC-TT
1 GTTTCATCTTCTCTTTCTCCGTT
*
1565156 GTTTCATC-TCCCTTTCTC
1 GTTTCATCTTCTCTTTCTC
1565174 TGCAACTCCA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
20 8 0.24
21 12 0.36
22 13 0.39
ACGTcount: A:0.03, C:0.33, G:0.05, T:0.59
Consensus pattern (23 bp):
GTTTCATCTTCTCTTTCTCCGTT
Found at i:1565309 original size:21 final size:21
Alignment explanation
Indices: 1565283--1565337 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
1565273 TGCTATTAAG
1565283 CCCGACGTTGAAGCCAAAGAA
1 CCCGACGTTGAAGCCAAAGAA
*
1565304 CCCGACGTTGAAGCCGAAGAA
1 CCCGACGTTGAAGCCAAAGAA
1565325 CCCGACGTTGAAG
1 CCCGACGTTGAAG
1565338 AGTTAAACCC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.33, C:0.29, G:0.27, T:0.11
Consensus pattern (21 bp):
CCCGACGTTGAAGCCAAAGAA
Found at i:1567019 original size:631 final size:631
Alignment explanation
Indices: 1565813--1567233 Score: 2389
Period size: 631 Copynumber: 2.3 Consensus size: 631
1565803 CATCTATTTT
* * *
1565813 TTACCGTATGAGTTCCCCTAAAATCTTGCTAGGCGTGGACATTATCACCTTCTTCTTGAAATGGA
1 TTACCGTATGAGTTCCCCTAAAATCCTGTTAGGCGTGGACATTATCACATTCTTCTTGAAATGGA
* *
1565878 TCAAAAGAACAGGTGGTGGGGTCCACCTTCCCGGGACGTTTTATTTGGTAGATTCTCTCTATGCT
66 TCAAAAGAACAGGTGGTGGGGTCCACCTTCCCGGGACGTTTTATTAGGTAGATTCTCTCTCTGCT
* *
1565943 ACAAACTGAAGCTTTGGTCTTTAGTGACGGAGAAAGTTTATTATGATGTGTCTGATTATTGGACT
131 ACAAACTGAAGCTTTGGTCTTTAGTGACAGAGAAAGTTTAATATGATGTGTCTGATTATTGGACT
* *
1566008 TTGAATCCACTGTTAGTTGATGGTATATTTTACCTCTTGTCAAGTCACAAGTTATTTTGATTTGG
196 TTGAATCCACTGTTAGTTGATGGTATACTTTACCTCTTGTCAAGTCACAAGCTATTTTGATTTGG
*
1566073 AATTAGTACAGCTACAACCAATAACTCTTCCAACTACAGTTTCTTACACTGATTGCTTTGAGCCA
261 AATTAGTACAACTACAACCAATAACTCTTCCAACTACAGTTTCTTACACTGATTGCTTTGAGCCA
*
1566138 TCTCGTGTTGGGTTTCTGCTGTCAATAAGGTTGTTCAGCCGATTGGATTCTTGGGAATACAACTT
326 TCTCGAGTTGGGTTTCTGCTGTCAATAAGGTTGTTCAGCCGATTGGATTCTTGGGAATACAACTT
*
1566203 TCAAATAGAGGAGAAATCTCTATTAAAGATAGGATATACGGCGTAAAAGACTCATCGAGTCATTC
391 TCAAATAGAGGAGAAATCTCTATTAAAGATAGGATATACGGCATAAAAGACTCATCGAGTCATTC
* * *
1566268 ATTTTATATATTAATGTAACACTAGAGCATTCTCTCTTTAACACAGCTCAGTTTAATATATTGGG
456 ATTTTATATATTAATGTAACACTAGAGCATTCTCTCTTTAACACAACTCAGATTAATATATTGGA
* *
1566333 TTCCAATAAAAGCCTAATTACTGACGTAGGAAAAGAGGATAATGATATTGGTTCTCGTAAAAGAC
521 TTCCAATAAAAGCCTAATTACCGACGTAGGAAAAGAGGATAATGATATGGGTTCTCGTAAAAGAC
*
1566398 TAATTCCAAACG-TAAGTAATAAGGCTTACAATCCTATTACTTAGGG
586 TAATTCCAAA-GATAAGTAATAAGGCTTACAATCATATTACTTAGGG
* * *
1566444 TTACCGTATTAATTCCCCTAAAATCCTATTAGGCGTGGACATTATCACATTCTTCTTGAAATGGA
1 TTACCGTATGAGTTCCCCTAAAATCCTGTTAGGCGTGGACATTATCACATTCTTCTTGAAATGGA
* *
1566509 TCAAAAGAACATGTGGTGGGGTCTACCTTCCCGGGACGTTTTATTAGGTAGATTCTCTCTCTGCT
66 TCAAAAGAACAGGTGGTGGGGTCCACCTTCCCGGGACGTTTTATTAGGTAGATTCTCTCTCTGCT
* *
1566574 ATAAACTGAAGCTTTGGTCTTTAGTGACAGAGAAAGTTTAATATGATGTGTCTGATTGTTGGACT
131 ACAAACTGAAGCTTTGGTCTTTAGTGACAGAGAAAGTTTAATATGATGTGTCTGATTATTGGACT
1566639 TTGAATCCACTGTTAGTTGATGGTATACTTTACCTCTTGTCAAGTCACAAGCTATTTTGATTTGG
196 TTGAATCCACTGTTAGTTGATGGTATACTTTACCTCTTGTCAAGTCACAAGCTATTTTGATTTGG
* *
1566704 AATTAGTACAACTACAACCAATAACTCTTCCAACTACAGTTTCTTGCACTGATTTCTTTGAGCCA
261 AATTAGTACAACTACAACCAATAACTCTTCCAACTACAGTTTCTTACACTGATTGCTTTGAGCCA
* *
1566769 TCTCGAGTTGGGTTTCTTCTGTCAATAAGGTTGTTCAGCCGATTGGATTCTTGGGAATGCAACTT
326 TCTCGAGTTGGGTTTCTGCTGTCAATAAGGTTGTTCAGCCGATTGGATTCTTGGGAATACAACTT
* *
1566834 TCAGATAGAGGAGAACTCTCTATTAAAGATAGGATATACGGCATAAAAGACTCATCGAGTCATTC
391 TCAAATAGAGGAGAAATCTCTATTAAAGATAGGATATACGGCATAAAAGACTCATCGAGTCATTC
* *
1566899 ATTTTATATATTAATGTAACACTAGAGCATTCTCTCTTTAACGCAACTCAGATTAATGT-TCTGG
456 ATTTTATATATTAATGTAACACTAGAGCATTCTCTCTTTAACACAACTCAGATTAATATAT-TGG
* *
1566963 ATTCCAATAAAAGGCTAATTACCGACGTAGGAAACA-AGGGTAATGATATGGGTTCTCGTAAAAG
520 ATTCCAATAAAAGCCTAATTACCGACGTAGGAAA-AGAGGATAATGATATGGGTTCTCGTAAAAG
* * * * *
1567027 CCTAATTCCAGAGATAGGTAATAAGGCTTATAATCATGTTACTTAGGG
584 ACTAATTCCAAAGATAAGTAATAAGGCTTACAATCATATTACTTAGGG
* *
1567075 TTACCGTATGAGTTCCCCTAAAATCCTGTTAGGCGTGGACATTGTCATATTCTTCTTGAAATGGA
1 TTACCGTATGAGTTCCCCTAAAATCCTGTTAGGCGTGGACATTATCACATTCTTCTTGAAATGGA
* *
1567140 TCAAAAGAACAGGTGGTGGGGTCCACCTTCCCGGGATGTGTTATTAGGTAGATTCTCTCTCTGCT
66 TCAAAAGAACAGGTGGTGGGGTCCACCTTCCCGGGACGTTTTATTAGGTAGATTCTCTCTCTGCT
*
1567205 ACAAACTGAAGCTTTGGTCTTTCGTGACA
131 ACAAACTGAAGCTTTGGTCTTTAGTGACA
1567234 TAATTTTATA
Statistics
Matches: 736, Mismatches: 51, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
630 2 0.00
631 733 1.00
632 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.34
Consensus pattern (631 bp):
TTACCGTATGAGTTCCCCTAAAATCCTGTTAGGCGTGGACATTATCACATTCTTCTTGAAATGGA
TCAAAAGAACAGGTGGTGGGGTCCACCTTCCCGGGACGTTTTATTAGGTAGATTCTCTCTCTGCT
ACAAACTGAAGCTTTGGTCTTTAGTGACAGAGAAAGTTTAATATGATGTGTCTGATTATTGGACT
TTGAATCCACTGTTAGTTGATGGTATACTTTACCTCTTGTCAAGTCACAAGCTATTTTGATTTGG
AATTAGTACAACTACAACCAATAACTCTTCCAACTACAGTTTCTTACACTGATTGCTTTGAGCCA
TCTCGAGTTGGGTTTCTGCTGTCAATAAGGTTGTTCAGCCGATTGGATTCTTGGGAATACAACTT
TCAAATAGAGGAGAAATCTCTATTAAAGATAGGATATACGGCATAAAAGACTCATCGAGTCATTC
ATTTTATATATTAATGTAACACTAGAGCATTCTCTCTTTAACACAACTCAGATTAATATATTGGA
TTCCAATAAAAGCCTAATTACCGACGTAGGAAAAGAGGATAATGATATGGGTTCTCGTAAAAGAC
TAATTCCAAAGATAAGTAATAAGGCTTACAATCATATTACTTAGGG
Found at i:1569011 original size:21 final size:21
Alignment explanation
Indices: 1568985--1569028 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
1568975 GAAACTCCCT
*
1568985 AAGGTGCTTTATATACATACA
1 AAGGTGCTTTACATACATACA
1569006 AAGGTGCTTTACATACATACA
1 AAGGTGCTTTACATACATACA
1569027 AA
1 AA
1569029 AGCCTCGTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.30
Consensus pattern (21 bp):
AAGGTGCTTTACATACATACA
Found at i:1570112 original size:34 final size:34
Alignment explanation
Indices: 1570073--1570168 Score: 140
Period size: 33 Copynumber: 2.9 Consensus size: 34
1570063 ATTAGTTTTG
1570073 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
*
1570107 CGTTGCGATTTTCA-TTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
** * *
1570140 CGTTGCGATAGTCATTTCCGCGTTGCGAT
1 CGTTGCGATTTTCATTTTCGCATTGCGAT
1570169 AGTCTGTTTT
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
33 30 0.54
34 26 0.46
ACGTcount: A:0.14, C:0.24, G:0.21, T:0.42
Consensus pattern (34 bp):
CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
Found at i:1570354 original size:34 final size:34
Alignment explanation
Indices: 1570310--1570405 Score: 131
Period size: 33 Copynumber: 2.9 Consensus size: 34
1570300 ATTAGTTTCG
*
1570310 CGTTGTGATTTTCATTTTCGCATTGCGATTCACT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
*
1570344 CGTTGCGATTTTCA-TTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
** * *
1570377 CGTTGCGATAGTCATTTCCGCGTTGCGAT
1 CGTTGCGATTTTCATTTTCGCATTGCGAT
1570406 AGTCTGTTTT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
33 30 0.55
34 25 0.45
ACGTcount: A:0.14, C:0.23, G:0.21, T:0.43
Consensus pattern (34 bp):
CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
Found at i:1570469 original size:237 final size:237
Alignment explanation
Indices: 1570054--1570513 Score: 893
Period size: 237 Copynumber: 1.9 Consensus size: 237
1570044 CTTTTCACTT
*
1570054 CAACGCGAAATTAGTTTTGCGTTGCGATTTTCATTTTCGCATTGCGATTCACTCGTTGCGATTTT
1 CAACGCGAAATTAGTTTCGCGTTGCGATTTTCATTTTCGCATTGCGATTCACTCGTTGCGATTTT
1570119 CATTTCGCATTGCGATTCTCTCGTTGCGATAGTCATTTCCGCGTTGCGATAGTCTGTTTTGCATT
66 CATTTCGCATTGCGATTCTCTCGTTGCGATAGTCATTTCCGCGTTGCGATAGTCTGTTTTGCATT
1570184 CAACATAATGCAGATTGAAATCAACAAATCAACTATTACATTTCAATCAATTAAACAAGCACAAA
131 CAACATAATGCAGATTGAAATCAACAAATCAACTATTACATTTCAATCAATTAAACAAGCACAAA
*
1570249 TATTATGTACATATCAATTAAACAAATCGAAAATGAAAATCG
196 TATTATGTACACATCAATTAAACAAATCGAAAATGAAAATCG
*
1570291 CAACGCGAAATTAGTTTCGCGTTGTGATTTTCATTTTCGCATTGCGATTCACTCGTTGCGATTTT
1 CAACGCGAAATTAGTTTCGCGTTGCGATTTTCATTTTCGCATTGCGATTCACTCGTTGCGATTTT
1570356 CATTTCGCATTGCGATTCTCTCGTTGCGATAGTCATTTCCGCGTTGCGATAGTCTGTTTTGCATT
66 CATTTCGCATTGCGATTCTCTCGTTGCGATAGTCATTTCCGCGTTGCGATAGTCTGTTTTGCATT
1570421 CAACATAATGCAGATTGAAATCAACAAATCAACTATTACATTTCAATCAATTAAACAAGCACAAA
131 CAACATAATGCAGATTGAAATCAACAAATCAACTATTACATTTCAATCAATTAAACAAGCACAAA
1570486 TATTATGTACACATCAATTAAACAAATC
196 TATTATGTACACATCAATTAAACAAATC
1570514 AACATTTACA
Statistics
Matches: 220, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
237 220 1.00
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.35
Consensus pattern (237 bp):
CAACGCGAAATTAGTTTCGCGTTGCGATTTTCATTTTCGCATTGCGATTCACTCGTTGCGATTTT
CATTTCGCATTGCGATTCTCTCGTTGCGATAGTCATTTCCGCGTTGCGATAGTCTGTTTTGCATT
CAACATAATGCAGATTGAAATCAACAAATCAACTATTACATTTCAATCAATTAAACAAGCACAAA
TATTATGTACACATCAATTAAACAAATCGAAAATGAAAATCG
Found at i:1570526 original size:14 final size:14
Alignment explanation
Indices: 1570507--1570543 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
1570497 CATCAATTAA
1570507 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
1570521 ACAAATCATCTTTT
1 ACAAATCAACATTT
1570535 ACAAATCAA
1 ACAAATCAA
1570544 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:1571993 original size:42 final size:42
Alignment explanation
Indices: 1571914--1572006 Score: 107
Period size: 42 Copynumber: 2.2 Consensus size: 42
1571904 CCTCTTCAAC
* * *
1571914 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGATGGGAGAGGACTCTTGAGG
* * **
1571956 GATGATAGGGGCCTCTTGAACGATAGGG-GAGGCCTCTTGAAC
1 GATGACAGGGGCCTCTTGAACGAT-GGGAGAGGACTCTTGAGG
1571998 GATGACAGG
1 GATGACAGG
1572007 TGAGTCGGGC
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
42 39 0.93
43 3 0.07
ACGTcount: A:0.23, C:0.17, G:0.40, T:0.20
Consensus pattern (42 bp):
GATGACAGGGGCCTCTTGAACGATGGGAGAGGACTCTTGAGG
Found at i:1572510 original size:20 final size:20
Alignment explanation
Indices: 1572487--1572530 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
1572477 GAAACTTAAA
1572487 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
*
1572507 ATCGCAATGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
1572527 ATCG
1 ATCG
1572531 AAATGAGAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.39, C:0.23, G:0.20, T:0.18
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:1572535 original size:20 final size:20
Alignment explanation
Indices: 1572495--1572535 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
1572485 AAATCGCAAC
*
1572495 GCGAAAATGACTATCGCAAT
1 GCGAAAATGACTATCGAAAT
1572515 GCGAAAATGACTATCGAAAT
1 GCGAAAATGACTATCGAAAT
1572535 G
1 G
1572536 AGAGAATCGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.41, C:0.17, G:0.22, T:0.20
Consensus pattern (20 bp):
GCGAAAATGACTATCGAAAT
Found at i:1572604 original size:34 final size:37
Alignment explanation
Indices: 1572559--1572686 Score: 109
Period size: 40 Copynumber: 3.4 Consensus size: 37
1572549 GCGATTTTCA
*
1572559 TTTCGCATTGCGAT-TC-TTT-CATTGCGATAGTCAT
1 TTTCGCGTTGCGATATCATTTCCATTGCGATAGTCAT
*
1572593 TTTCGCGTTGCGATAGTCATTTTCGCGTTGCGATAGTCAT
1 TTTCGCGTTGCGATA-TCA-TTTC-CATTGCGATAGTCAT
* * * *
1572633 TTTTGCGTTGCGATAGTCATTTTTGCGTTGCTATAGTCAT
1 TTTCGCGTTGCGATA-TCA--TTTCCATTGCGATAGTCAT
* *
1572673 TTTTGCATTGCGAT
1 TTTCGCGTTGCGAT
1572687 TGTAAACTAT
Statistics
Matches: 81, Mismatches: 6, Indels: 8
0.85 0.06 0.08
Matches are distributed among these distances:
34 13 0.16
36 2 0.02
38 3 0.04
40 59 0.73
41 4 0.05
ACGTcount: A:0.16, C:0.18, G:0.22, T:0.45
Consensus pattern (37 bp):
TTTCGCGTTGCGATATCATTTCCATTGCGATAGTCAT
Found at i:1572605 original size:20 final size:20
Alignment explanation
Indices: 1572580--1572686 Score: 178
Period size: 20 Copynumber: 5.3 Consensus size: 20
1572570 GATTCTTTCA
*
1572580 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTTGCG
*
1572600 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTTGCG
1572620 TTGCGATAGTCATTTTTGCG
1 TTGCGATAGTCATTTTTGCG
1572640 TTGCGATAGTCATTTTTGCG
1 TTGCGATAGTCATTTTTGCG
* *
1572660 TTGCTATAGTCATTTTTGCA
1 TTGCGATAGTCATTTTTGCG
1572680 TTGCGAT
1 TTGCGAT
1572687 TGTAAACTAT
Statistics
Matches: 83, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 83 1.00
ACGTcount: A:0.16, C:0.17, G:0.23, T:0.44
Consensus pattern (20 bp):
TTGCGATAGTCATTTTTGCG
Found at i:1574543 original size:21 final size:20
Alignment explanation
Indices: 1574519--1574571 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
1574509 GAAACTTTAA
1574519 ATCGCAACACGAAAAATGACT
1 ATCGCAACAC-AAAAATGACT
* **
1574540 ATCGCAACGCAAATTTGACT
1 ATCGCAACACAAAAATGACT
1574560 ATCGCAACACAA
1 ATCGCAACACAA
1574572 GAATCGCAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 19 0.68
21 9 0.32
ACGTcount: A:0.43, C:0.26, G:0.13, T:0.17
Consensus pattern (20 bp):
ATCGCAACACAAAAATGACT
Found at i:1574642 original size:20 final size:20
Alignment explanation
Indices: 1574617--1574659 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
1574607 CTCTCGTTGT
1574617 GATAGTCAAATTCGCATTGC
1 GATAGTCAAATTCGCATTGC
** *
1574637 GATAGTCATTTTCGCGTTGC
1 GATAGTCAAATTCGCATTGC
1574657 GAT
1 GAT
1574660 TCACTCGTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (20 bp):
GATAGTCAAATTCGCATTGC
Found at i:1575249 original size:20 final size:20
Alignment explanation
Indices: 1575224--1575295 Score: 126
Period size: 20 Copynumber: 3.6 Consensus size: 20
1575214 ATGTAAATCA
1575224 CATTGCGATTTACGTATTCG
1 CATTGCGATTTACGTATTCG
*
1575244 CATTGCGATTTACTTATTCG
1 CATTGCGATTTACGTATTCG
*
1575264 CATTGCGATTTACGTAATCG
1 CATTGCGATTTACGTATTCG
1575284 CATTGCGATTTA
1 CATTGCGATTTA
1575296 GGAAAATCGC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.22, C:0.19, G:0.18, T:0.40
Consensus pattern (20 bp):
CATTGCGATTTACGTATTCG
Found at i:1575305 original size:21 final size:20
Alignment explanation
Indices: 1575218--1575334 Score: 99
Period size: 20 Copynumber: 5.8 Consensus size: 20
1575208 GGCGCTATGT
*
1575218 AAATCACATTGCGATTTACG
1 AAATCGCATTGCGATTTACG
* * *
1575238 TATTCGCATTGCGATTTACT
1 AAATCGCATTGCGATTTACG
* *
1575258 TATTCGCATTGCGATTTACG
1 AAATCGCATTGCGATTTACG
* *
1575278 TAATCGCATTGCGATTTAGG
1 AAATCGCATTGCGATTTACG
* * **
1575298 AAAATCGCAATGCCAATTTGGG
1 -AAATCGCATTG-CGATTTACG
*
1575320 AAATCGCAATGCGAT
1 AAATCGCATTGCGAT
1575335 AGTTAGAATC
Statistics
Matches: 83, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
20 56 0.67
21 20 0.24
22 7 0.08
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (20 bp):
AAATCGCATTGCGATTTACG
Found at i:1575321 original size:22 final size:21
Alignment explanation
Indices: 1575291--1575331 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
1575281 TCGCATTGCG
1575291 ATTTAGGAAAATCGCAATGCCA
1 ATTTAGG-AAATCGCAATGCCA
*
1575313 ATTTGGGAAATCGCAATGC
1 ATTTAGGAAATCGCAATGC
1575332 GATAGTTAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.24
Consensus pattern (21 bp):
ATTTAGGAAATCGCAATGCCA
Found at i:1582385 original size:4 final size:4
Alignment explanation
Indices: 1582378--1582423 Score: 65
Period size: 4 Copynumber: 11.5 Consensus size: 4
1582368 TCCATCCATC
* * *
1582378 CATA CATA CATA CATA CATA CATA CAGA CACA CATA CAGA CATA CA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CA
1582424 CACAGACACA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.50, C:0.28, G:0.04, T:0.17
Consensus pattern (4 bp):
CATA
Found at i:1582393 original size:12 final size:12
Alignment explanation
Indices: 1582381--1582431 Score: 75
Period size: 12 Copynumber: 4.2 Consensus size: 12
1582371 ATCCATCCAT
*
1582381 ACATACATACAT
1 ACATACATACAG
1582393 ACATACATACAG
1 ACATACATACAG
*
1582405 ACACACATACAG
1 ACATACATACAG
*
1582417 ACATACACACAG
1 ACATACATACAG
1582429 ACA
1 ACA
1582432 CACAGACACA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 35 1.00
ACGTcount: A:0.51, C:0.29, G:0.06, T:0.14
Consensus pattern (12 bp):
ACATACATACAG
Found at i:1582432 original size:8 final size:8
Alignment explanation
Indices: 1582401--1582446 Score: 65
Period size: 8 Copynumber: 5.8 Consensus size: 8
1582391 ATACATACAT
1582401 ACAGACAC
1 ACAGACAC
* *
1582409 ACATACAG
1 ACAGACAC
*
1582417 ACATACAC
1 ACAGACAC
1582425 ACAGACAC
1 ACAGACAC
1582433 ACAGACAC
1 ACAGACAC
1582441 ACAGAC
1 ACAGAC
1582447 GCGCGCACGC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 34 1.00
ACGTcount: A:0.50, C:0.35, G:0.11, T:0.04
Consensus pattern (8 bp):
ACAGACAC
Found at i:1584925 original size:36 final size:35
Alignment explanation
Indices: 1584878--1584998 Score: 140
Period size: 34 Copynumber: 3.4 Consensus size: 35
1584868 TATGGGTAAT
1584878 ATATAGTTTTTAAAATATTTTTTGAAAACTATATAAC
1 ATATAG-TTTTAAAATA-TTTTTGAAAACTATATAAC
* *
1584915 ATATAGTTTT-AAACATTTTAGAAAA-TATTATAAC
1 ATATAGTTTTAAAATATTTTTGAAAACTA-TATAAC
* *
1584949 ATATAGTTTTAAAATCA-TTTTAAAAACTTATATAAT
1 ATATAGTTTTAAAAT-ATTTTTGAAAAC-TATATAAC
1584985 ATATAGTTTTAAAA
1 ATATAGTTTTAAAA
1584999 ACATTTTGAA
Statistics
Matches: 73, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
33 2 0.03
34 25 0.34
35 14 0.19
36 24 0.33
37 8 0.11
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (35 bp):
ATATAGTTTTAAAATATTTTTGAAAACTATATAAC
Found at i:1584947 original size:34 final size:34
Alignment explanation
Indices: 1584853--1585149 Score: 180
Period size: 36 Copynumber: 8.8 Consensus size: 34
1584843 TTTTAAAAAG
**
1584853 AAAACATTTTGAAAATATGGGTAATATATAGTTTTT
1 AAAACATTTTGAAAATAT-TATAATATATAG-TTTT
* *
1584889 AAAATATTTTTTGAAAACTA-TATAACATATAGTTTT
1 AAAACA--TTTTGAAAA-TATTATAATATATAGTTTT
*
1584925 -AAACATTTTAGAAAATATTATAACATATAGTTTT
1 AAAACATTTT-GAAAATATTATAATATATAGTTTT
*
1584959 AAAATCATTTTAAAAACT-TATATAATATATAGTTTT
1 AAAA-CATTTTGAAAA-TAT-TATAATATATAGTTTT
1584995 AAAAACATTTTGAATAA-ATTAT--TATATAGTTTT
1 -AAAACATTTTGAA-AATATTATAATATATAGTTTT
* * * *
1585028 AAAAACGTTTTTTAAAAAACT-T-ATATA-A-TTTT
1 -AAAAC-ATTTTGAAAATATTATAATATATAGTTTT
1585060 AAAACATTTTGAAAACTA-TAT-A-ATATAGTTTT
1 AAAACATTTTGAAAA-TATTATAATATATAGTTTT
** *
1585092 GAAAAC-TTTT-TTAA-A-TATAA-ATATAGTTTA
1 -AAAACATTTTGAAAATATTATAATATATAGTTTT
* * *
1585122 AAAATATTTTGAAATATAGTATTATATA
1 AAAACATTTTGAAA-ATATTATAATATA
1585150 ATTTATATTA
Statistics
Matches: 213, Mismatches: 21, Indels: 55
0.74 0.07 0.19
Matches are distributed among these distances:
29 8 0.04
30 26 0.12
31 12 0.06
32 13 0.06
33 33 0.15
34 37 0.17
35 18 0.08
36 40 0.19
37 15 0.07
38 9 0.04
39 2 0.01
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.43
Consensus pattern (34 bp):
AAAACATTTTGAAAATATTATAATATATAGTTTT
Found at i:1585086 original size:64 final size:64
Alignment explanation
Indices: 1584984--1585106 Score: 178
Period size: 64 Copynumber: 1.9 Consensus size: 64
1584974 ACTTATATAA
* *
1584984 TATATAGTTTTAAAAACATTTTGAATAAATTATTATATAGTTTTAAAAACGTTTTTTAAAAAACT
1 TATATAATTTTAAAAACATTTTGAATAAATTATAATATAGTTTTAAAAAC-TTTTTTAAAAAACT
* *
1585049 TATATAATTTT-AAAACATTTTGAA-AACTATATAATATAGTTTTGAAAACTTTTTTAAA
1 TATATAATTTTAAAAACATTTTGAATAAAT-TATAATATAGTTTTAAAAACTTTTTTAAA
1585107 TATAAATATA
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
63 12 0.23
64 31 0.58
65 10 0.19
ACGTcount: A:0.45, C:0.05, G:0.06, T:0.45
Consensus pattern (64 bp):
TATATAATTTTAAAAACATTTTGAATAAATTATAATATAGTTTTAAAAACTTTTTTAAAAAACT
Found at i:1585136 original size:29 final size:30
Alignment explanation
Indices: 1584886--1585139 Score: 86
Period size: 33 Copynumber: 7.7 Consensus size: 30
1584876 ATATATAGTT
*
1584886 TTTAAAATATTTTTTGAAAACTATATAACATATAG
1 TTTAAAA-ATATTTTG-AAA-TATAT-A-ATATAG
* *
1584921 TTTTAAACAT-TTTAGAAAATATTATAACATATAG
1 -TTTAAAAATATTTTG-AAATA-TAT-A-ATATAG
* *
1584955 TTTTAAAATCATTTTAAAAACTTATATAATATATAG
1 TTTAAAAAT-ATTTT-GAAA--TATAT-A-ATATAG
* * *
1584991 TTTTAAAAACATTTTGAATAAATTATTATATAG
1 -TTTAAAAATATTTTGAA-ATA-TATAATATAG
* * * *
1585024 TTTTAAAAACGT-TTTTTAAA-AAACTTATATAA
1 -TTTAAAAA--TATTTTGAAATATA-TAATATAG
* *
1585056 TTTTAAAACATTTTGAAAACTATATAATATAG
1 TTTAAAAATATTTTG-AAA-TATATAATATAG
* *
1585088 TTTTGAAAACT-TTTTTAAATATA-AATATAG
1 -TTT-AAAAATATTTTGAAATATATAATATAG
1585118 TTTAAAAATATTTTGAAATATA
1 TTTAAAAATATTTTGAAATATA
1585140 GTATTATATA
Statistics
Matches: 171, Mismatches: 28, Indels: 45
0.70 0.11 0.18
Matches are distributed among these distances:
28 5 0.03
29 14 0.08
30 11 0.06
31 15 0.09
32 17 0.10
33 34 0.20
34 30 0.18
35 13 0.08
36 23 0.13
37 9 0.05
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (30 bp):
TTTAAAAATATTTTGAAATATATAATATAG
Found at i:1591669 original size:84 final size:83
Alignment explanation
Indices: 1591412--1592625 Score: 1295
Period size: 84 Copynumber: 14.7 Consensus size: 83
1591402 TAAACAAACT
* * * *
1591412 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACC-AAGACCTTCGAGTTCGACTACGC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTGACCAAAGACCTTCGAGTTCGACTACGC
1591476 TCAGCTCCAAGGCACATC
66 TCAGCTCCAAGGCACATC
* * ** * *
1591494 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATC--TG-CCAAAGACCCCCGAGTTCGATTACAC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTGACCAAAGACCTTCGAGTTCGACTACGC
* *
1591556 TCAGCTTCGAGGGCACATC
66 TCAGC-TCCAAGGCACATC
* * * *
1591575 ATTTACAGCATAACTCAAGACTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTGACC-AAAGACCTTCGAGTTCGACTACG
1591640 CTCAGCTCCAAGGCACATC
65 CTCAGCTCCAAGGCACATC
* * ** * *
1591659 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATC--TG-CCAAAGACCCCCGAGTTCGATTACAC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTGACCAAAGACCTTCGAGTTCGACTACGC
* *
1591721 TCAGCTTCGAGGGCACATC
66 TCAGC-TCCAAGGCACATC
* ** *
1591740 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTAGCTGCCAACAAAAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTG-TGACCAAAGACCTTCGAGTTCGACTACG
1591805 CTCAGCTCCAAGGCACATC
65 CTCAGCTCCAAGGCACATC
* * * * ** * * *
1591824 ATTTGCAGCATAGCTTAAATCGAGAAGGGCTATC--TG-CCAAAGGCCCCCAAGTTCGATTACAC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTGACCAAAGACCTTCGAGTTCGACTACGC
* *
1591886 TCAGCTTCGAGGGCACATC
66 TCAGC-TCCAAGGCACATC
* ** *
1591905 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTAGCTGCCAACAAAAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTG-TGACCAAAGACCTTCGAGTTCGACTACG
1591970 CTCAGCTCCAAGGCACATC
65 CTCAGCTCCAAGGCACATC
* * * * * *
1591989 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATC--TG-CCAAGGACC-CCGAGTTCGATTACAC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTGACCAAAGACCTTCGAGTTCGACTACGC
* *
1592050 TCAGCTTCGAGGGCACATC
66 TCAGC-TCCAAGGCACATC
* * * * *
1592069 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTTGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTGACC-AAAGACCTTCGAGTTCGACTACG
1592134 CTCAGCTCCAAGGCACATC
65 CTCAGCTCCAAGGCACATC
* * * * * * *
1592153 ATGTGCAGCATAGCTTAAGTCGAGAAGGGCTATC--TG-CCAAGGACC-CCGAGTTCGATTACAC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTGACCAAAGACCTTCGAGTTCGACTACGC
* *
1592214 TCAGCTTCGAGGGCACATC
66 TCAGC-TCCAAGGCACATC
* * * * *
1592233 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTTGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTGACC-AAAGACCTTCGAGTTCGACTACG
1592298 CTCAGCTCCAAGGCACATC
65 CTCAGCTCCAAGGCACATC
** **
1592317 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCCCCGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTG-TGACCAAAGACCTTCGAGTTCGACTACG
*
1592382 CTCAGCTCCAAGGCATATC
65 CTCAGCTCCAAGGCACATC
** * * * ** * *
1592401 ATTTGCAATACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTG-TGACCAAAGACCTTCGAGTTCGACTACG
1592466 CTCAGCT-CAACGGCACATC
65 CTCAGCTCCAA-GGCACATC
* * * *
1592485 ATTTACAGCATAACTCAAAG-CTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTCC
1 ATTTGCAGCATAACT-TAAGTCGAGAAGGGTTATCTGTGACC-AAAGACCTTCGAGTTCGACTAC
1592549 GCTCAGCTCCAAGGCACATC
64 GCTCAGCTCCAAGGCACATC
** * *
1592569 ATTTTGCAGCATAGTTTAAGTCGAGAAGGGCTATC--TG-CTAAAGACCTTCGAGTTCGA
1 A-TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTGACCAAAGACCTTCGAGTTCGA
1592626 TTATATTCAA
Statistics
Matches: 928, Mismatches: 169, Indels: 71
0.79 0.14 0.06
Matches are distributed among these distances:
79 37 0.04
80 165 0.18
81 144 0.16
82 37 0.04
83 13 0.01
84 391 0.42
85 141 0.15
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.23
Consensus pattern (83 bp):
ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTGACCAAAGACCTTCGAGTTCGACTACGC
TCAGCTCCAAGGCACATC
Found at i:1592144 original size:164 final size:165
Alignment explanation
Indices: 1591412--1592496 Score: 1687
Period size: 165 Copynumber: 6.6 Consensus size: 165
1591402 TAAACAAACT
1591412 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACC--AAGACCTTCGAGTTCGACTACG
1 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACG
1591475 CTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCC
66 CTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCC
1591540 CCGAGTTCGATTACACTCAGCTTCGAGGGCACATC
131 CCGAGTTCGATTACACTCAGCTTCGAGGGCACATC
*
1591575 ATTTACAGCATAACTCAAGACTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACG
1 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACG
1591640 CTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCC
66 CTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCC
1591705 CCGAGTTCGATTACACTCAGCTTCGAGGGCACATC
131 CCGAGTTCGATTACACTCAGCTTCGAGGGCACATC
* * * * * ** *
1591740 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTAGCTGCCAACAAAAGACCTTCGAGTTCGACTACG
1 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACG
* *
1591805 CTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAATCGAGAAGGGCTATCTGCCAAAGGCCC
66 CTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCC
*
1591870 CCAAGTTCGATTACACTCAGCTTCGAGGGCACATC
131 CCGAGTTCGATTACACTCAGCTTCGAGGGCACATC
* * * * * ** *
1591905 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTAGCTGCCAACAAAAGACCTTCGAGTTCGACTACG
1 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACG
*
1591970 CTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAGGA-CC
66 CTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCC
1592034 CCGAGTTCGATTACACTCAGCTTCGAGGGCACATC
131 CCGAGTTCGATTACACTCAGCTTCGAGGGCACATC
*
1592069 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTTGAGTTCGACTACG
1 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACG
* *
1592134 CTCAGCTCCAAGGCACATCATGTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAGGA-CC
66 CTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCC
1592198 CCGAGTTCGATTACACTCAGCTTCGAGGGCACATC
131 CCGAGTTCGATTACACTCAGCTTCGAGGGCACATC
*
1592233 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTTGAGTTCGACTACG
1 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACG
* *
1592298 CTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAG
66 CTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG----CCAAAG
* * * * *
1592363 ACCCCCGAGTTCGACTACGCTCAGC-TCCAAGGCATATC
127 ACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATC
* ** * * * * ** * *
1592401 ATTTGCAATACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTCGACTACG
1 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACG
*
1592466 CTCAGCT-CAACGGCACATCATTTACAGCATA
66 CTCAGCTCCAA-GGCACATCATTTGCAGCATA
1592497 ACTCAAAGCT
Statistics
Matches: 868, Mismatches: 46, Indels: 11
0.94 0.05 0.01
Matches are distributed among these distances:
163 40 0.05
164 307 0.35
165 400 0.46
167 3 0.00
168 97 0.11
169 21 0.02
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.23
Consensus pattern (165 bp):
ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACG
CTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCC
CCGAGTTCGATTACACTCAGCTTCGAGGGCACATC
Found at i:1593423 original size:37 final size:36
Alignment explanation
Indices: 1593327--1593639 Score: 228
Period size: 36 Copynumber: 8.8 Consensus size: 36
1593317 TTTTAAAAAG
*
1593327 AAAACA-TTTTG-AAAATATGGGTAATATATAGTTTTTT
1 AAAACATTTTTGAAAAATAT--ATAATATATAG-TTTTT
* * *
1593364 AAAATATTTTTTGAAAACTATATAACATATAGTTTTT
1 AAAACA-TTTTTGAAAAATATATAATATATAGTTTTT
* *
1593401 AAAACATTTTAGAAAATATATATAACATATAG-TTTT
1 AAAACATTTTTGAAAA-ATATATAATATATAGTTTTT
*
1593437 AAAATCA-TTTT-AAAAACTTATATAATATATAGTTTTA
1 AAAA-CATTTTTGAAAAA--TATATAATATATAGTTTTT
*
1593474 AAAACATTTTTGAATAAATTATATAATATATAGTTTTA
1 AAAACATTTTTGAA-AAA-TATATAATATATAGTTTTT
* *
1593512 AAAACGTTTTTTAAAAA-ACT-T-ATATAATA-TTTTT
1 AAAACATTTTTGAAAAATA-TATAATAT-ATAGTTTTT
* *
1593546 AAAACA-TTTTGAAAACTATAT-A-ATATAGTTTTG
1 AAAACATTTTTGAAAAATATATAATATATAGTTTTT
* **
1593579 AAAAC-TTTTT---TAA-ATATAATATATAGTTTAA
1 AAAACATTTTTGAAAAATATATAATATATAGTTTTT
* * * *
1593610 AAAATATTTTTGAAATATATGTATTATATA
1 AAAACATTTTTGAAAAATATATAATATATA
1593640 ATTTATATTA
Statistics
Matches: 226, Mismatches: 26, Indels: 49
0.75 0.09 0.16
Matches are distributed among these distances:
29 4 0.02
30 2 0.01
31 13 0.06
32 8 0.04
33 24 0.11
34 17 0.08
35 10 0.04
36 46 0.20
37 45 0.20
38 43 0.19
39 8 0.04
40 6 0.03
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (36 bp):
AAAACATTTTTGAAAAATATATAATATATAGTTTTT
Found at i:1593602 original size:36 final size:34
Alignment explanation
Indices: 1593350--1593619 Score: 150
Period size: 37 Copynumber: 7.7 Consensus size: 34
1593340 AATATGGGTA
* *
1593350 ATATATAGTTTTTTAAAA-TATTTTTTGAAAACTATAT
1 ATATATAG--TTTTAAAACTA--TTTTAAAAAATATAT
*
1593387 AACATATAGTTTTTAAAAC-ATTTTAGAAAATATATAT
1 -ATATATAG-TTTTAAAACTATTTTA-AAAA-ATATAT
* *
1593424 AACATATAGTTTTAAAA-TCATTTTAAAAACTTATAT
1 -ATATATAGTTTTAAAACT-ATTTTAAAAA-ATATAT
*
1593460 AATATATAGTTTTAAAAAC-ATTTTTGAATAAATTATAT
1 -ATATATAGTTTT-AAAACTA-TTTT-AA-AAAATATAT
*
1593498 AATATATAGTTTTAAAAACGTTTTTTAAAAAACT-TAT
1 -ATATATAGTTTT-AAAAC-TATTTTAAAAAA-TATAT
* * *
1593535 ATA-ATATTTTTAAAAC-ATTTTGAAAACTATAT
1 ATATATAGTTTTAAAACTATTTTAAAAAATATAT
*
1593567 A-ATATAGTTTTGAAAACT-TTTT--TAAATATA-
1 ATATATAGTTTT-AAAACTATTTTAAAAAATATAT
* *
1593597 ATATATAGTTTAAAAAATATTTT
1 ATATATAGTTTTAAAACTATTTT
1593620 TGAAATATAT
Statistics
Matches: 196, Mismatches: 17, Indels: 45
0.76 0.07 0.17
Matches are distributed among these distances:
30 6 0.03
31 21 0.11
32 19 0.10
33 9 0.05
34 5 0.03
35 11 0.06
36 37 0.19
37 44 0.22
38 37 0.19
39 7 0.04
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.45
Consensus pattern (34 bp):
ATATATAGTTTTAAAACTATTTTAAAAAATATAT
Found at i:1593620 original size:31 final size:32
Alignment explanation
Indices: 1593456--1593628 Score: 113
Period size: 32 Copynumber: 5.2 Consensus size: 32
1593446 TTAAAAACTT
*
1593456 ATATAATATATAGTTTTAAAAACATTTTTGAATAAA
1 ATATAATATATAGTTTTAAAAA-ATTTTT---TGAA
* *
1593492 TTATATAATATATAGTTTTAAAAACGTTTTTTAAA
1 --ATATAATATATAGTTTTAAAAA-ATTTTTTGAA
* * * *
1593527 AAACTTATATAATATTTTTAAAACA--TTTTGAA
1 ATA-TAATAT-ATAGTTTTAAAAAATTTTTTGAA
* *
1593559 A-ACTATATAATATAGTTTTGAAAACTTTTTT-AA
1 ATA-TA-AT-ATATAGTTTTAAAAAATTTTTTGAA
1593592 ATATAATATATAG-TTTAAAAAATATTTTTGAA
1 ATATAATATATAGTTTTAAAAAAT-TTTTTGAA
1593624 ATATA
1 ATATA
1593629 TGTATTATAT
Statistics
Matches: 112, Mismatches: 14, Indels: 24
0.75 0.09 0.16
Matches are distributed among these distances:
30 8 0.07
31 14 0.12
32 28 0.25
33 9 0.08
34 10 0.09
35 15 0.13
38 28 0.25
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (32 bp):
ATATAATATATAGTTTTAAAAAATTTTTTGAA
Found at i:1593620 original size:98 final size:106
Alignment explanation
Indices: 1593348--1593620 Score: 255
Period size: 111 Copynumber: 2.6 Consensus size: 106
1593338 AAAATATGGG
* * * **
1593348 TAATATATAGTTTTTTAAAATATTTTT-TGAAAACTATATAACATATAGTTTTTAAAACA--TTT
1 TAATATATAG-TTTTAAAAACATTTTTAT--AAA-TATATAATATATAGTTTAAAAAACATTTTT
*
1593410 TAGAAAA-TATATATAACATATAGTTTTAAAATCATTTTAAAAACTTATA
62 TAAAAAACT-TATAT-A-ATAT--TTTTAAAATCATTTTAAAAACTTATA
* *
1593459 TAATATATAGTTTTAAAAACATTTTTGAATAAATTATATAATATATAGTTTTAAAAACGTTTTTT
1 TAATATATAGTTTTAAAAACATTTTT--ATAAA-TATATAATATATAGTTTAAAAAACATTTTTT
*
1593524 AAAAAACTTATATAATATTTTTAAAA-CATTTTGAAAAC-TATA
63 AAAAAACTTATATAATATTTTTAAAATCATTTTAAAAACTTATA
* *
1593566 T-A-ATATAGTTTTGAAAAC-TTTTT-T-AA-ATATAATATATAGTTTAAAAAATATTTTT
1 TAATATATAGTTTTAAAAACATTTTTATAAATATATAATATATAGTTTAAAAAACATTTTT
1593621 GAAATATATG
Statistics
Matches: 144, Mismatches: 12, Indels: 25
0.80 0.07 0.14
Matches are distributed among these distances:
98 26 0.18
100 2 0.01
101 1 0.01
104 5 0.03
105 15 0.10
106 1 0.01
107 5 0.03
108 11 0.08
109 8 0.06
110 14 0.10
111 39 0.27
112 1 0.01
113 15 0.10
114 1 0.01
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.45
Consensus pattern (106 bp):
TAATATATAGTTTTAAAAACATTTTTATAAATATATAATATATAGTTTAAAAAACATTTTTTAAA
AAACTTATATAATATTTTTAAAATCATTTTAAAAACTTATA
Found at i:1593703 original size:15 final size:14
Alignment explanation
Indices: 1593668--1593696 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
1593658 TTATTATTAT
1593668 TTATTTTCTTTTTA
1 TTATTTTCTTTTTA
1593682 TTATTTTCTTTTTA
1 TTATTTTCTTTTTA
1593696 T
1 T
1593697 GTTTTTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.07, G:0.00, T:0.79
Consensus pattern (14 bp):
TTATTTTCTTTTTA
Found at i:1604055 original size:21 final size:21
Alignment explanation
Indices: 1604013--1604056 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
1604003 ACTCTGGGAG
* *
1604013 CTAGTTCTTCACGAGCTGCTC
1 CTAGCTCTTCACGAGCTCCTC
* *
1604034 CTAGCTCTTCTCGTGCTCCTC
1 CTAGCTCTTCACGAGCTCCTC
1604055 CT
1 CT
1604057 CCTCCTCTGG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.09, C:0.39, G:0.16, T:0.36
Consensus pattern (21 bp):
CTAGCTCTTCACGAGCTCCTC
Found at i:1604316 original size:16 final size:16
Alignment explanation
Indices: 1604295--1604333 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
1604285 TTTCAACGGC
*
1604295 AGATGCTTGCACGTAT
1 AGATGCTTACACGTAT
1604311 AGATGCTTACACGTAT
1 AGATGCTTACACGTAT
*
1604327 GGATGCT
1 AGATGCT
1604334 CTCTCTCTCG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.31
Consensus pattern (16 bp):
AGATGCTTACACGTAT
Found at i:1605300 original size:64 final size:65
Alignment explanation
Indices: 1605186--1605309 Score: 180
Period size: 64 Copynumber: 1.9 Consensus size: 65
1605176 AATGCATTTT
* * * *
1605186 ATGCATCGGTGCACTCAGGTTTTTATGAAAACATCGAATGCATTTGATGCATCGATGCACAAGAC
1 ATGCATCGATGCACTCAGGTATTTATGAAAACATCGAATGCACTTCATGCATCGATGCACAAGAC
*
1605251 ATGCATCGATGCACTCAGGCTATTT-T-AAAATATCGAATGCACTTCATGCATCGATGCAC
1 ATGCATCGATGCACTCAGG-TATTTATGAAAACATCGAATGCACTTCATGCATCGATGCAC
1605310 TCTTAGTGCA
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
64 30 0.57
65 19 0.36
66 4 0.08
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (65 bp):
ATGCATCGATGCACTCAGGTATTTATGAAAACATCGAATGCACTTCATGCATCGATGCACAAGAC
Found at i:1605309 original size:17 final size:19
Alignment explanation
Indices: 1605282--1605329 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
1605272 ATTTTAAAAT
1605282 ATCGAATGCACT-TCA-TGC
1 ATCG-ATGCACTCTCAGTGC
*
1605300 ATCGATGCACTCTTAGTGC
1 ATCGATGCACTCTCAGTGC
*
1605319 ACCGATGCACT
1 ATCGATGCACT
1605330 AAAGGTCCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 7 0.27
18 6 0.23
19 13 0.50
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (19 bp):
ATCGATGCACTCTCAGTGC
Found at i:1607246 original size:3 final size:3
Alignment explanation
Indices: 1607240--1607307 Score: 82
Period size: 3 Copynumber: 22.0 Consensus size: 3
1607230 TCATTTAAAT
** * *
1607240 TTA TTA TTA TTA TTA AAA TTA TTA TTA TTA GTA TTA TTA TTA TAA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1607288 TTA TTA TATA TTA TTTA TTA
1 TTA TTA T-TA TTA -TTA TTA
1607308 AATATTACAA
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
3 49 0.89
4 6 0.11
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:1608677 original size:3 final size:3
Alignment explanation
Indices: 1608654--1608721 Score: 65
Period size: 3 Copynumber: 23.7 Consensus size: 3
1608644 TATTTCCTTT
* *
1608654 TTA TTT TTA TTTA TT- TTA TTA TTA TTA TT- TT- TTA TTG TT- TTAA
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A
1608697 TTA TTA TT- TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
1608722 TATAAAAATA
Statistics
Matches: 56, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
2 10 0.18
3 41 0.73
4 5 0.09
ACGTcount: A:0.25, C:0.00, G:0.01, T:0.74
Consensus pattern (3 bp):
TTA
Found at i:1608699 original size:25 final size:25
Alignment explanation
Indices: 1608657--1608704 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
1608647 TTCCTTTTTA
*
1608657 TTTTTATTTATTTTATTATTATTAT
1 TTTTTATTTATTTAATTATTATTAT
1608682 TTTTTATTGT-TTTAATTATTATT
1 TTTTTATT-TATTTAATTATTATT
1608705 TTATTATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 20 0.95
26 1 0.05
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (25 bp):
TTTTTATTTATTTAATTATTATTAT
Found at i:1608701 original size:33 final size:31
Alignment explanation
Indices: 1608651--1608715 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 31
1608641 TTTTATTTCC
*
1608651 TTTTTATTTTTATTTATT-TTATTATTATTAT
1 TTTTTATTTTTAATTATTATT-TTATTATTAT
1608682 TTTTTATTGTTTTAATTATTATTTTATTATTAT
1 TTTTTA-T-TTTTAATTATTATTTTATTATTAT
1608715 T
1 T
1608716 ATTATTTATA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
31 6 0.20
32 1 0.03
33 21 0.70
34 2 0.07
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (31 bp):
TTTTTATTTTTAATTATTATTTTATTATTAT
Found at i:1609058 original size:16 final size:17
Alignment explanation
Indices: 1609028--1609064 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
1609018 ATATTTTATT
1609028 TATATTTTATATATAAA
1 TATATTTTATATATAAA
*
1609045 TATATTTT-TATATAAT
1 TATATTTTATATATAAA
1609061 TATA
1 TATA
1609065 ACTTTGAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TATATTTTATATATAAA
Found at i:1609063 original size:26 final size:26
Alignment explanation
Indices: 1609014--1609064 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
1609004 TTCTAAATAA
* *
1609014 ATAAATATTTTATTTATATTTTATAT
1 ATAAATATATTATTTATATATTATAT
1609040 ATAAATATATT-TTTATATAATTATA
1 ATAAATATATTATTTATAT-ATTATA
1609065 ACTTTGAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 7 0.32
26 15 0.68
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (26 bp):
ATAAATATATTATTTATATATTATAT
Found at i:1609569 original size:30 final size:30
Alignment explanation
Indices: 1609535--1609594 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
1609525 TAATTCTTTC
*
1609535 TTTTCAAAATATTTTTATATATACTTATTA
1 TTTTCAAAATATTTATATATATACTTATTA
* * * *
1609565 TTTTCATAGTATTTATATATTTTCTTATTA
1 TTTTCAAAATATTTATATATATACTTATTA
1609595 ATATTTCATT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.32, C:0.07, G:0.02, T:0.60
Consensus pattern (30 bp):
TTTTCAAAATATTTATATATATACTTATTA
Found at i:1613871 original size:91 final size:90
Alignment explanation
Indices: 1613769--1613952 Score: 350
Period size: 91 Copynumber: 2.0 Consensus size: 90
1613759 TACAAACAAG
*
1613769 AAAAGCAAGAAATGCTGAAGATATGAGAAAATGGAAATGAATCCAAAATTTGGTAGTCTAGAGGG
1 AAAAGCAAGAAATGCTGAAGATATGAGAAAATGGAAATGAATCCAAAATTTGGCAGTCTAGAGGG
1613834 ATCCAAATGATGGAAAAATCCCCAAC
66 ATCCAAATGATGG-AAAATCCCCAAC
1613860 AAAAGCAAGAAATGCTGAAGATATGAGAAAATGGAAATGAATCCAAAATTTGGCAGTCTAGAGGG
1 AAAAGCAAGAAATGCTGAAGATATGAGAAAATGGAAATGAATCCAAAATTTGGCAGTCTAGAGGG
1613925 ATCCAAATGATGGAAAATCCCCAAC
66 ATCCAAATGATGGAAAATCCCCAAC
1613950 AAA
1 AAA
1613953 GCAGATCCAA
Statistics
Matches: 92, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
90 15 0.16
91 77 0.84
ACGTcount: A:0.47, C:0.14, G:0.22, T:0.18
Consensus pattern (90 bp):
AAAAGCAAGAAATGCTGAAGATATGAGAAAATGGAAATGAATCCAAAATTTGGCAGTCTAGAGGG
ATCCAAATGATGGAAAATCCCCAAC
Found at i:1615804 original size:92 final size:92
Alignment explanation
Indices: 1615639--1615890 Score: 414
Period size: 92 Copynumber: 2.7 Consensus size: 92
1615629 AAGGAGACCC
* * *
1615639 AATATCATCTTCTCGAAGTGTTCTTTGAGTTATCTTATCTGGTTTGGTATGAACCACAGAACCAA
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACCAA
* *
1615704 TCATTGAATTTGGAAGATGAATGTGCT
66 TCACTGAATTTGGAAGAGGAATGTGCT
* *
1615731 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACCAG
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACCAA
*
1615796 TTACTGAATTTGGAAGAGGAATGTGCT
66 TCACTGAATTTGGAAGAGGAATGTGCT
* *
1615823 AATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATCTGGTTTGGTATGAACCACAGAAACAA
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACCAA
1615888 TCA
66 TCA
1615891 TTGGAATTAA
Statistics
Matches: 147, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
92 147 1.00
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.35
Consensus pattern (92 bp):
AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACCAA
TCACTGAATTTGGAAGAGGAATGTGCT
Found at i:1618305 original size:22 final size:22
Alignment explanation
Indices: 1618280--1618356 Score: 136
Period size: 22 Copynumber: 3.5 Consensus size: 22
1618270 ATCTACATTC
1618280 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
*
1618302 TTCAAAGATGAAAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
*
1618324 TTTAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
1618346 TTCAAAGATGA
1 TTCAAAGATGA
1618357 AAGCTTTATG
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 51 1.00
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.39
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:1619159 original size:76 final size:76
Alignment explanation
Indices: 1619033--1619825 Score: 1388
Period size: 76 Copynumber: 10.4 Consensus size: 76
1619023 CTATTTCCCA
*
1619033 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGACTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1619098 AGCCTTAGGGT
66 AGCCTTAGGGT
1619109 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
1619174 AGCCTTCGGGT
66 AGCCTTAGGGT
1619185 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
1619250 AGCCTTCGGGT
66 AGCCTTAGGGT
* *
1619261 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTCCGAGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC-A
*
1619326 AAACCTTAGGGT
65 AAGCCTTAGGGT
* * *
1619338 CATCTGTAAGTACTTCAGTGCATGATGTTTCCAAAAAGCCTCCGAGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC-A
*
1619403 AAACCTTAGGGT
65 AAGCCTTAGGGT
*
1619415 AATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC-A
*
1619480 AAACCTTAGGGT
65 AAGCCTTAGGGT
1619492 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
1619557 AGCCTTCGGGT
66 AGCCTTAGGGT
*
1619568 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGTTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1619633 AGCCTTAGGGT
66 AGCCTTAGGGT
1619644 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
1619709 AGCCTTCGGGT
66 AGCCTTAGGGT
* *
1619720 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGTTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1619785 AGCCTTAGGGT
66 AGCCTTAGGGT
* *
1619796 CATCTGTAAGCCCTTCAGTGCCTGATGTTT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTT
1619826 TCAACATTTC
Statistics
Matches: 693, Mismatches: 23, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
76 471 0.68
77 222 0.32
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.35
Consensus pattern (76 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGT
Found at i:1619963 original size:3 final size:3
Alignment explanation
Indices: 1619957--1620024 Score: 82
Period size: 3 Copynumber: 22.0 Consensus size: 3
1619947 TCATTTAAAT
** * *
1619957 TTA TTA TTA TTA TTA AAA TTA TTA TTA TTA GTA TTA TTA TTA TAA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1620005 TTA TTA TATA TTA TTTA TTA
1 TTA TTA T-TA TTA -TTA TTA
1620025 AATATTACAA
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
3 49 0.89
4 6 0.11
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:1621371 original size:16 final size:15
Alignment explanation
Indices: 1621350--1621435 Score: 61
Period size: 16 Copynumber: 5.6 Consensus size: 15
1621340 TTTAATACTA
*
1621350 TATTTTTATTTCCTTT
1 TATTTTTATTT-ATTT
1621366 TATTTTTATTTATTT
1 TATTTTTATTTATTT
* *
1621381 TATTATTATTATTTTT
1 TATTTTTATT-TATTT
* *
1621397 TATTGTT-TTAATTAT
1 TATTTTTATTTATT-T
1621412 TA-TTTTA-TTATTAT
1 TATTTTTATTTATT-T
1621426 TATTATTTAT
1 TATT-TTTAT
1621436 AAAAATAAAT
Statistics
Matches: 56, Mismatches: 8, Indels: 11
0.75 0.11 0.15
Matches are distributed among these distances:
14 13 0.23
15 18 0.32
16 25 0.45
ACGTcount: A:0.23, C:0.02, G:0.01, T:0.73
Consensus pattern (15 bp):
TATTTTTATTTATTT
Found at i:1621388 original size:3 final size:3
Alignment explanation
Indices: 1621365--1621432 Score: 65
Period size: 3 Copynumber: 23.7 Consensus size: 3
1621355 TTATTTCCTT
* *
1621365 TTA TTT TTA TTTA TT- TTA TTA TTA TTA TT- TT- TTA TTG TT- TTAA
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A
1621408 TTA TTA TT- TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
1621433 TATAAAAATA
Statistics
Matches: 56, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
2 10 0.18
3 41 0.73
4 5 0.09
ACGTcount: A:0.25, C:0.00, G:0.01, T:0.74
Consensus pattern (3 bp):
TTA
Found at i:1621459 original size:2 final size:2
Alignment explanation
Indices: 1621452--1621502 Score: 86
Period size: 2 Copynumber: 26.0 Consensus size: 2
1621442 AAATAAATAA
*
1621452 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1621493 AT AT AT AT AT
1 AT AT AT AT AT
1621503 TTTTATTAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 45 0.98
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:1621777 original size:14 final size:14
Alignment explanation
Indices: 1621758--1621786 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
1621748 ATATTTTATT
1621758 TATATTTTATATAA
1 TATATTTTATATAA
1621772 TATATTTTATATAA
1 TATATTTTATATAA
1621786 T
1 T
1621787 TATAACTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TATATTTTATATAA
Found at i:1624129 original size:20 final size:20
Alignment explanation
Indices: 1624104--1624184 Score: 101
Period size: 20 Copynumber: 4.0 Consensus size: 20
1624094 TCTAATTTCA
*
1624104 CAACACAGGTTCCAAAATCG
1 CAACACAGTTTCCAAAATCG
1624124 CAACACAGTTTCCAAAATCG
1 CAACACAGTTTCCAAAATCG
* * **
1624144 CAACGCGAATTT-GTAAATCG
1 CAACAC-AGTTTCCAAAATCG
1624164 CAACACAGTTTCCAAAATCG
1 CAACACAGTTTCCAAAATCG
1624184 C
1 C
1624185 GTTGCGATAG
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
19 4 0.08
20 42 0.84
21 4 0.08
ACGTcount: A:0.38, C:0.28, G:0.14, T:0.20
Consensus pattern (20 bp):
CAACACAGTTTCCAAAATCG
Found at i:1624275 original size:57 final size:57
Alignment explanation
Indices: 1624177--1624305 Score: 161
Period size: 57 Copynumber: 2.3 Consensus size: 57
1624167 CACAGTTTCC
* ** * * *
1624177 AAAATCGCGTTGCGATAGTACTGTTTACCTATATCGGTAATTCGCGTTGCGAATTTG
1 AAAATCGTGTTGCGATAACACTGTTTACCTACATCGATAATTAGCGTTGCGAATTTG
* * *
1624234 AAAATCGTGTTGCGATAACATTGTTTACCTACATCGATAATTAGTGTTGTGAATTTG
1 AAAATCGTGTTGCGATAACACTGTTTACCTACATCGATAATTAGCGTTGCGAATTTG
1624291 AAAATC-TCGTTGCGA
1 AAAATCGT-GTTGCGA
1624306 ATTTGAAAAT
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
56 1 0.02
57 61 0.98
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.36
Consensus pattern (57 bp):
AAAATCGTGTTGCGATAACACTGTTTACCTACATCGATAATTAGCGTTGCGAATTTG
Found at i:1624304 original size:77 final size:78
Alignment explanation
Indices: 1624221--1624382 Score: 249
Period size: 77 Copynumber: 2.1 Consensus size: 78
1624211 CGGTAATTCG
* *
1624221 CGTTGCGAATTTGAAAATCGTGTTGCGATAACATTGTTTACCTACATCGATAATTAGTGTTGTGA
1 CGTTGCGAATTTGAAAATCGCGTTGCGATAACATTGTTTACCTACATCGATAATTAGTGTTGCG-
1624286 ATTT-GAAAATC-T
65 ATTTGGAAAATCGT
* * *
1624298 CGTTGCGAATTTGAAAATCGCGTTGCGGTAATATTGTTTACCTACATCGGTAATTAGTGTTGCGA
1 CGTTGCGAATTTGAAAATCGCGTTGCGATAACATTGTTTACCTACATCGATAATTAGTGTTGCGA
1624363 TTTGGAAAATCGT
66 TTTGGAAAATCGT
1624376 -GTTGCGA
1 CGTTGCGA
1624383 TAGTACTGTT
Statistics
Matches: 78, Mismatches: 5, Indels: 4
0.90 0.06 0.05
Matches are distributed among these distances:
76 4 0.05
77 73 0.94
78 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.36
Consensus pattern (78 bp):
CGTTGCGAATTTGAAAATCGCGTTGCGATAACATTGTTTACCTACATCGATAATTAGTGTTGCGA
TTTGGAAAATCGT
Found at i:1624307 original size:20 final size:20
Alignment explanation
Indices: 1624279--1624324 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
1624269 GATAATTAGT
* *
1624279 GTTGTGAATTTGAAAATCTC
1 GTTGCGAATTTGAAAATCGC
1624299 GTTGCGAATTTGAAAATCGC
1 GTTGCGAATTTGAAAATCGC
1624319 GTTGCG
1 GTTGCG
1624325 GTAATATTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.26, C:0.13, G:0.26, T:0.35
Consensus pattern (20 bp):
GTTGCGAATTTGAAAATCGC
Found at i:1624393 original size:57 final size:56
Alignment explanation
Indices: 1624298--1624496 Score: 272
Period size: 57 Copynumber: 3.5 Consensus size: 56
1624288 TTGAAAATCT
* * * *
1624298 CGTTGCGAATTTGAAAATCGCGTTGCGGTAATATTGTTTACCTACATCGGTAATTAG
1 CGTTGCG-ATTTGAAAATCGCGTTGCGATAGTACTGTTTACCTATATCGGTAATTAG
* *
1624355 TGTTGCGATTTGGAAAATCGTGTTGCGATAGTACTGTTTACCTATATCGGTAATTAG
1 CGTTGCGATTT-GAAAATCGCGTTGCGATAGTACTGTTTACCTATATCGGTAATTAG
* *
1624412 CGTTGCAAATTTGTAAATCGCGTTGCGATAGTACTGTTTACCTATATCGGTAATTAG
1 CGTTGC-GATTTGAAAATCGCGTTGCGATAGTACTGTTTACCTATATCGGTAATTAG
* *
1624469 CGTTGCGAATTTAAAAATCTCGTTGCGA
1 CGTTGCG-ATTTGAAAATCGCGTTGCGA
1624497 ATTTGTAAAT
Statistics
Matches: 125, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
56 4 0.03
57 117 0.94
58 4 0.03
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (56 bp):
CGTTGCGATTTGAAAATCGCGTTGCGATAGTACTGTTTACCTATATCGGTAATTAG
Found at i:1624393 original size:134 final size:134
Alignment explanation
Indices: 1624177--1624760 Score: 617
Period size: 134 Copynumber: 4.4 Consensus size: 134
1624167 CACAGTTTCC
* * *
1624177 AAAATCGCGTTGCGATAGTACTGTTTACCTATATCGGTAATTCGCGTTGCGAATTTGAAAATCGT
1 AAAATCGCGTTGCGATAGTACTGTTTACCTACATCGGTAATTAGCGTTGCGAATTTGAAAATCGC
** * * * * *
1624242 GTTGCGATAACATTGTTTACCTACATCGATAATTAGTGTTGTGAATTTGAAAATCTCGTTGCGAA
66 GTTGCGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAAATCTCGTTGCGAA
1624307 TTTG
131 TTTG
* * * *
1624311 AAAATCGCGTTGCGGTAATATTGTTTACCTACATCGGTAATTAGTGTTGCG-ATTTGGAAAATCG
1 AAAATCGCGTTGCGATAGTACTGTTTACCTACATCGGTAATTAGCGTTGCGAATTT-GAAAATCG
* * * *
1624375 TGTTGCGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCAAATTTGTAAATCGCGTTGCG-
65 CGTTGCGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAAATCTCGTTGCGA
*
1624439 A-TAG
130 ATTTG
* * * * * * * * **** * ** *
1624443 -TACT-G-TTTAC-CTA-TATCGGTAATTAGCGTTGCGAATTTAAAAATCTCGTTGCGAATTTGT
1 AAAATCGCGTTGCGATAGTA-CTGT--TTA-C-CTAC--ATCGGTAATTAGCGTTGCGAATTTGA
* * *
1624503 AAATCGCGTTGCGATAGTACTGTTTACCTTTATCGGTAATTAGCGTTACGAATTTGAAAATCTCA
59 AAATCGCGTTGCGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAAATCTCG
*
1624568 TTGTGAATTTG
124 TTGCGAATTTG
* * * * * *
1624579 TAAATCGCGTTGCGATAGTACTATTTACCTATATCTGTAATTAGCGTTGCGAATTTGTAAATTGC
1 AAAATCGCGTTGCGATAGTACTGTTTACCTACATCGGTAATTAGCGTTGCGAATTTGAAAATCGC
*
1624644 GTTGCGATAGTACTGTTTACTTATATCGGTAATTAGCGTTGCGAATTTGAAAATCTCGTTGCGAA
66 GTTGCGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAAATCTCGTTGCGAA
1624709 TTTG
131 TTTG
*
1624713 AAAATCGCGTTGCGATAGTACTGTTTACCTACATCGGTAATCAGCGTT
1 AAAATCGCGTTGCGATAGTACTGTTTACCTACATCGGTAATTAGCGTT
1624761 ACGATTTATA
Statistics
Matches: 363, Mismatches: 71, Indels: 32
0.78 0.15 0.07
Matches are distributed among these distances:
127 2 0.01
128 4 0.01
129 3 0.01
130 4 0.01
131 3 0.01
132 4 0.01
133 5 0.01
134 314 0.87
135 5 0.01
136 3 0.01
137 3 0.01
138 4 0.01
139 3 0.01
140 4 0.01
141 2 0.01
ACGTcount: A:0.27, C:0.15, G:0.21, T:0.37
Consensus pattern (134 bp):
AAAATCGCGTTGCGATAGTACTGTTTACCTACATCGGTAATTAGCGTTGCGAATTTGAAAATCGC
GTTGCGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAAATCTCGTTGCGAA
TTTG
Found at i:1624494 original size:20 final size:20
Alignment explanation
Indices: 1624468--1624516 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
1624458 TCGGTAATTA
1624468 GCGTTGCGAATTTAAAAATC
1 GCGTTGCGAATTTAAAAATC
* **
1624488 TCGTTGCGAATTTGTAAATC
1 GCGTTGCGAATTTAAAAATC
1624508 GCGTTGCGA
1 GCGTTGCGA
1624517 TAGTACTGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (20 bp):
GCGTTGCGAATTTAAAAATC
Found at i:1624508 original size:77 final size:77
Alignment explanation
Indices: 1624412--1624634 Score: 374
Period size: 77 Copynumber: 2.9 Consensus size: 77
1624402 CGGTAATTAG
*
1624412 CGTTGCAAATTTGTAAATCGCGTTGCGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGA
1 CGTTGCGAATTTGTAAATCGCGTTGCGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGA
1624477 ATTTAAAAATCT
66 ATTTAAAAATCT
* *
1624489 CGTTGCGAATTTGTAAATCGCGTTGCGATAGTACTGTTTACCTTTATCGGTAATTAGCGTTACGA
1 CGTTGCGAATTTGTAAATCGCGTTGCGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGA
*
1624554 ATTTGAAAATCT
66 ATTTAAAAATCT
* * * *
1624566 CATTGTGAATTTGTAAATCGCGTTGCGATAGTACTATTTACCTATATCTGTAATTAGCGTTGCGA
1 CGTTGCGAATTTGTAAATCGCGTTGCGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGA
1624631 ATTT
66 ATTT
1624635 GTAAATTGCG
Statistics
Matches: 136, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
77 136 1.00
ACGTcount: A:0.27, C:0.15, G:0.20, T:0.38
Consensus pattern (77 bp):
CGTTGCGAATTTGTAAATCGCGTTGCGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGA
ATTTAAAAATCT
Found at i:1624621 original size:211 final size:211
Alignment explanation
Indices: 1624369--1624764 Score: 693
Period size: 211 Copynumber: 1.9 Consensus size: 211
1624359 GCGATTTGGA
* *
1624369 AAATCGTGTTGCGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCAAATTTGTAAATCGCG
1 AAATCGCGTTGCGATAGTACTATTTACCTATATCGGTAATTAGCGTTGCAAATTTGTAAATCGCG
1624434 TTGCGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTAAAAATCTCGTTGCGAAT
66 TTGCGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTAAAAATCTCGTTGCGAAT
* ** *
1624499 TTGTAAATCGCGTTGCGATAGTACTGTTTACCTTTATCGGTAATTAGCGTTACGAATTTGAAAAT
131 TTGAAAATCGCGTTGCGATAGTACTGTTTACCTACATCGGTAATCAGCGTTACGAATTTGAAAAT
1624564 CTCATTGTGAATTTGT
196 CTCATTGTGAATTTGT
* * *
1624580 AAATCGCGTTGCGATAGTACTATTTACCTATATCTGTAATTAGCGTTGCGAATTTGTAAATTGCG
1 AAATCGCGTTGCGATAGTACTATTTACCTATATCGGTAATTAGCGTTGCAAATTTGTAAATCGCG
* *
1624645 TTGCGATAGTACTGTTTACTTATATCGGTAATTAGCGTTGCGAATTTGAAAATCTCGTTGCGAAT
66 TTGCGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTAAAAATCTCGTTGCGAAT
1624710 TTGAAAATCGCGTTGCGATAGTACTGTTTACCTACATCGGTAATCAGCGTTACGA
131 TTGAAAATCGCGTTGCGATAGTACTGTTTACCTACATCGGTAATCAGCGTTACGA
1624765 TTTATATATA
Statistics
Matches: 174, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
211 174 1.00
ACGTcount: A:0.27, C:0.15, G:0.21, T:0.37
Consensus pattern (211 bp):
AAATCGCGTTGCGATAGTACTATTTACCTATATCGGTAATTAGCGTTGCAAATTTGTAAATCGCG
TTGCGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTAAAAATCTCGTTGCGAAT
TTGAAAATCGCGTTGCGATAGTACTGTTTACCTACATCGGTAATCAGCGTTACGAATTTGAAAAT
CTCATTGTGAATTTGT
Found at i:1624663 original size:57 final size:57
Alignment explanation
Indices: 1624572--1624707 Score: 211
Period size: 57 Copynumber: 2.4 Consensus size: 57
1624562 ATCTCATTGT
* *
1624572 GAATTTGTAAATCGCGTTGCGATAGTACTATTTACCTATATCTGTAATTAGCGTTGC
1 GAATTTGTAAATTGCGTTGCGATAGTACTATTTACCTATATCGGTAATTAGCGTTGC
* *
1624629 GAATTTGTAAATTGCGTTGCGATAGTACTGTTTACTTATATCGGTAATTAGCGTTGC
1 GAATTTGTAAATTGCGTTGCGATAGTACTATTTACCTATATCGGTAATTAGCGTTGC
*
1624686 GAATTTGAAAATCT-CGTTGCGA
1 GAATTTGTAAAT-TGCGTTGCGA
1624708 ATTTGAAAAT
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
57 72 0.99
58 1 0.01
ACGTcount: A:0.26, C:0.14, G:0.21, T:0.38
Consensus pattern (57 bp):
GAATTTGTAAATTGCGTTGCGATAGTACTATTTACCTATATCGGTAATTAGCGTTGC
Found at i:1624705 original size:20 final size:20
Alignment explanation
Indices: 1624679--1624727 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
1624669 TCGGTAATTA
1624679 GCGTTGCGAATTTGAAAATC
1 GCGTTGCGAATTTGAAAATC
*
1624699 TCGTTGCGAATTTGAAAATC
1 GCGTTGCGAATTTGAAAATC
1624719 GCGTTGCGA
1 GCGTTGCGA
1624728 TAGTACTGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.31
Consensus pattern (20 bp):
GCGTTGCGAATTTGAAAATC
Found at i:1624750 original size:77 final size:79
Alignment explanation
Indices: 1624622--1624808 Score: 238
Period size: 77 Copynumber: 2.4 Consensus size: 79
1624612 TCTGTAATTA
* * * * * *
1624622 GCGTTGCGAATTTGTAAATTGCGTTGCGATAGTACTGTTTACTTATATCGGTAATTAGCGTTGCG
1 GCGTTGCGAATTTGAAAATCGCGTTGCGATAGTACTGTTTACCTACATCGGTAATCAGCGTTACG
1624687 AATTTGA-A-A-A-TC
66 -ATTT-ATATATATTC
*
1624699 TCGTTGCGAATTTGAAAATCGCGTTGCGATAGTACTGTTTACCTACATCGGTAATCAGCGTTACG
1 GCGTTGCGAATTTGAAAATCGCGTTGCGATAGTACTGTTTACCTACATCGGTAATCAGCGTTACG
1624764 ATTTATATATATTC
66 ATTTATATATATTC
* *
1624778 GCGTTGCGAATTTGGAAAACCACGTTGCGAT
1 GCGTTGCGAATTT-GAAAATCGCGTTGCGAT
1624809 TTACATATTA
Statistics
Matches: 95, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
75 1 0.01
76 5 0.05
77 59 0.62
78 1 0.01
79 14 0.15
80 15 0.16
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.35
Consensus pattern (79 bp):
GCGTTGCGAATTTGAAAATCGCGTTGCGATAGTACTGTTTACCTACATCGGTAATCAGCGTTACG
ATTTATATATATTC
Found at i:1624823 original size:20 final size:20
Alignment explanation
Indices: 1624800--1624850 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
1624790 TGGAAAACCA
*
1624800 CGTTGCGATTTACATATTAT
1 CGTTGCGATTTACATATTAG
* *
1624820 CGTTGCGATTTATATATTCG
1 CGTTGCGATTTACATATTAG
1624840 CGTTGCGATTT
1 CGTTGCGATTT
1624851 TAAAACTTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.20, C:0.16, G:0.20, T:0.45
Consensus pattern (20 bp):
CGTTGCGATTTACATATTAG
Found at i:1630047 original size:23 final size:22
Alignment explanation
Indices: 1630006--1630048 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
1629996 AAAAAAATCA
*
1630006 AAGAAAAAATTATCGTTTTAGG
1 AAGAAAAAATGATCGTTTTAGG
*
1630028 AAGAAAAAATGAGTCTTTTTA
1 AAGAAAAAATGA-TCGTTTTA
1630049 TTGAAAGAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.47, C:0.05, G:0.16, T:0.33
Consensus pattern (22 bp):
AAGAAAAAATGATCGTTTTAGG
Found at i:1630960 original size:5 final size:5
Alignment explanation
Indices: 1630950--1630975 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
1630940 CAATTTTAAA
1630950 ACCCG ACCCG ACCCG ACCCG ACCCG A
1 ACCCG ACCCG ACCCG ACCCG ACCCG A
1630976 ATTTATTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.58, G:0.19, T:0.00
Consensus pattern (5 bp):
ACCCG
Found at i:1633960 original size:21 final size:22
Alignment explanation
Indices: 1633936--1633980 Score: 56
Period size: 25 Copynumber: 2.0 Consensus size: 22
1633926 ATAATGATAA
1633936 AAAC-ATCAATTAATATATCCT
1 AAACAATCAATTAATATATCCT
1633957 AAACTTAAATCAATTAATATATCC
1 AAAC---AATCAATTAATATATCC
1633981 ATAACTGCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 4 0.20
25 16 0.80
ACGTcount: A:0.49, C:0.18, G:0.00, T:0.33
Consensus pattern (22 bp):
AAACAATCAATTAATATATCCT
Found at i:1634271 original size:2 final size:2
Alignment explanation
Indices: 1634266--1634296 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1634256 TATGTGTGAC
1634266 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1634297 CACTGTGATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1635246 original size:2 final size:2
Alignment explanation
Indices: 1635241--1635270 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1635231 AAAAAAGTAA
1635241 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1635271 GCAGTAACTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1635393 original size:37 final size:37
Alignment explanation
Indices: 1635315--1635402 Score: 106
Period size: 37 Copynumber: 2.4 Consensus size: 37
1635305 TTTTAACCTT
* * *
1635315 AAATCCGACTCCGACCCGACTTCGAAAATTTTAATATA
1 AAATCCGAC-CCGACCCGAATCCGAAAATTTTAATAAA
**
1635353 AAATCCGACCCGACCCGAATCCGAATTTTTTTAA-AAA
1 AAATCCGACCCGACCCGAATCCGAA-AATTTTAATAAA
1635390 AAATCCGACCCGA
1 AAATCCGACCCGA
1635403 TCGGGTCGGG
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
37 29 0.66
38 15 0.34
ACGTcount: A:0.38, C:0.28, G:0.11, T:0.23
Consensus pattern (37 bp):
AAATCCGACCCGACCCGAATCCGAAAATTTTAATAAA
Found at i:1644265 original size:15 final size:16
Alignment explanation
Indices: 1644241--1644277 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
1644231 TTTAGATTTT
1644241 AAAA-AAAAAAC-TAA
1 AAAATAAAAAACTTAA
*
1644255 ATAATAAAAAACTTAA
1 AAAATAAAAAACTTAA
1644271 AAAATAA
1 AAAATAA
1644278 CATTCATGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
14 3 0.16
15 7 0.37
16 9 0.47
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.16
Consensus pattern (16 bp):
AAAATAAAAAACTTAA
Found at i:1647717 original size:45 final size:47
Alignment explanation
Indices: 1647644--1647749 Score: 153
Period size: 45 Copynumber: 2.3 Consensus size: 47
1647634 TTTATTTTCG
*
1647644 TTTTTCGAATAAATGCATGCGAACTAGATATCATGCAGTTAGG-TTTA
1 TTTTTTGAAT-AATGCATGCGAACTAGATATCATGCAGTTAGGATTTA
* *
1647691 TTTTTTGAATAA-GCATGCGAATTAGATATCATGCGGTTAGGATTTA
1 TTTTTTGAATAATGCATGCGAACTAGATATCATGCAGTTAGGATTTA
1647737 TTTTTGTGAATAA
1 TTTTT-TGAATAA
1647750 CAAAGCATGG
Statistics
Matches: 54, Mismatches: 3, Indels: 4
0.89 0.05 0.07
Matches are distributed among these distances:
45 27 0.50
46 11 0.20
47 16 0.30
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (47 bp):
TTTTTTGAATAATGCATGCGAACTAGATATCATGCAGTTAGGATTTA
Found at i:1657411 original size:14 final size:14
Alignment explanation
Indices: 1657370--1657545 Score: 167
Period size: 14 Copynumber: 11.9 Consensus size: 14
1657360 AAATAATGAA
*
1657370 AAAAATAGAAAAGAAG
1 AAAAA-AGAAAA-ATG
1657386 AAAGAAA-AAAAATG
1 AAA-AAAGAAAAATG
1657400 AAGAAAAGAAAAAAATG
1 AA-AAAAG--AAAAATG
*
1657417 AAAAATGAAAAATG
1 AAAAAAGAAAAATG
*
1657431 AAAAATGAAAAATG
1 AAAAAAGAAAAATG
*
1657445 AAAAATGAAAAATG
1 AAAAAAGAAAAATG
*
1657459 AAAAATGAAAAATG
1 AAAAAAGAAAAATG
*
1657473 AAAAAATAAAAAAT-
1 AAAAAA-GAAAAATG
1657487 AAAAAATGAAAAATG
1 AAAAAA-GAAAAATG
1657502 AAAAAAATGAAAAAATG
1 -AAAAAA-G-AAAAATG
1657519 AAAAAATGAAAAATG
1 AAAAAA-GAAAAATG
*
1657534 AAAAATGAAAAA
1 AAAAAAGAAAAA
1657546 AGAAGAAAAA
Statistics
Matches: 145, Mismatches: 6, Indels: 20
0.85 0.04 0.12
Matches are distributed among these distances:
14 80 0.55
15 23 0.16
16 24 0.17
17 18 0.12
ACGTcount: A:0.76, C:0.00, G:0.13, T:0.11
Consensus pattern (14 bp):
AAAAAAGAAAAATG
Found at i:1657420 original size:7 final size:7
Alignment explanation
Indices: 1657410--1657545 Score: 209
Period size: 7 Copynumber: 18.7 Consensus size: 7
1657400 AAGAAAAGAA
1657410 AAAAATG
1 AAAAATG
1657417 AAAAATG
1 AAAAATG
1657424 AAAAATG
1 AAAAATG
1657431 AAAAATG
1 AAAAATG
1657438 AAAAATG
1 AAAAATG
1657445 AAAAATG
1 AAAAATG
1657452 AAAAATG
1 AAAAATG
1657459 AAAAATG
1 AAAAATG
1657466 AAAAATG
1 AAAAATG
*
1657473 AAAAAATA
1 -AAAAATG
*
1657481 AAAAATA
1 AAAAATG
1657488 AAAAATG
1 AAAAATG
1657495 AAAAATG
1 AAAAATG
1657502 AAAAAAATG
1 --AAAAATG
1657511 AAAAAATG
1 -AAAAATG
1657519 AAAAAATG
1 -AAAAATG
1657527 AAAAATG
1 AAAAATG
1657534 AAAAATG
1 AAAAATG
1657541 AAAAA
1 AAAAA
1657546 AGAAGAAAAA
Statistics
Matches: 124, Mismatches: 2, Indels: 6
0.94 0.02 0.05
Matches are distributed among these distances:
7 95 0.77
8 22 0.18
9 7 0.06
ACGTcount: A:0.75, C:0.00, G:0.12, T:0.13
Consensus pattern (7 bp):
AAAAATG
Found at i:1657558 original size:7 final size:7
Alignment explanation
Indices: 1657370--1657566 Score: 135
Period size: 7 Copynumber: 26.4 Consensus size: 7
1657360 AAATAATGAA
1657370 AAAAATAG
1 AAAAA-AG
1657378 AAAAGAAG
1 AAAA-AAG
1657386 AAAGAAA-
1 AAA-AAAG
*
1657393 AAAAATG
1 AAAAAAG
1657400 AAGAAAAG
1 AA-AAAAG
1657408 AAAAAAATG
1 -AAAAAA-G
*
1657417 AAAAATG
1 AAAAAAG
*
1657424 AAAAATG
1 AAAAAAG
*
1657431 AAAAATG
1 AAAAAAG
*
1657438 AAAAATG
1 AAAAAAG
*
1657445 AAAAATG
1 AAAAAAG
*
1657452 AAAAATG
1 AAAAAAG
*
1657459 AAAAATG
1 AAAAAAG
*
1657466 AAAAATG
1 AAAAAAG
*
1657473 AAAAAAT
1 AAAAAAG
*
1657480 AAAAAAT
1 AAAAAAG
1657487 AAAAAATG
1 AAAAAA-G
*
1657495 AAAAATG
1 AAAAAAG
1657502 AAAAAAATG
1 -AAAAAA-G
1657511 AAAAAATG
1 AAAAAA-G
1657519 AAAAAATG
1 AAAAAA-G
*
1657527 AAAAATG
1 AAAAAAG
*
1657534 AAAAATG
1 AAAAAAG
1657541 AAAAAAG
1 AAAAAAG
*
1657548 AAGAAAAA
1 AA-AAAAG
1657556 AGAAAAAG
1 A-AAAAAG
1657564 AAA
1 AAA
1657567 TAAAAGGAGG
Statistics
Matches: 166, Mismatches: 12, Indels: 23
0.83 0.06 0.11
Matches are distributed among these distances:
6 2 0.01
7 92 0.55
8 65 0.39
9 7 0.04
ACGTcount: A:0.76, C:0.00, G:0.14, T:0.10
Consensus pattern (7 bp):
AAAAAAG
Done.