Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007825.1 Hibiscus syriacus cultivar Beakdansim tig00110163_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: 2082551
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 11
Found at i:1747434 original size:14 final size:14
Alignment explanation
Indices: 1747417--1747473 Score: 55
Period size: 14 Copynumber: 4.1 Consensus size: 14
1747407 TTTAGTATTA
1747417 ATGATTTAAGGTTT
1 ATGATTTAAGGTTT
*
1747431 ATGATTTAAGATTT
1 ATGATTTAAGGTTT
*
1747445 AGGATTT-AGTGTTT
1 ATGATTTAAG-GTTT
*
1747459 AT-AGTTTAGGGTTT
1 ATGA-TTTAAGGTTT
1747473 A
1 A
1747474 AGGTTCATTA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
13 3 0.09
14 31 0.89
15 1 0.03
ACGTcount: A:0.28, C:0.00, G:0.23, T:0.49
Consensus pattern (14 bp):
ATGATTTAAGGTTT
Found at i:1747665 original size:25 final size:26
Alignment explanation
Indices: 1747616--1747667 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
1747606 AAAAATTAGT
1747616 TATTAAAAATATTATCATTAGAAATA
1 TATTAAAAATATTATCATTAGAAATA
* * *
1747642 TATTAAATAT-TTGTCATTATAAATA
1 TATTAAAAATATTATCATTAGAAATA
1747667 T
1 T
1747668 TTTTTTATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 14 0.61
26 9 0.39
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.44
Consensus pattern (26 bp):
TATTAAAAATATTATCATTAGAAATA
Found at i:1747775 original size:21 final size:22
Alignment explanation
Indices: 1747730--1747778 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
1747720 ACAATTTTCA
*
1747730 ATTTTT-TTATTTTTTGGTTGT
1 ATTTTTCTTATTTTTTGATTGT
*
1747751 -TTTTTCTTATTTTTT-ATTTT
1 ATTTTTCTTATTTTTTGATTGT
1747771 ATTTTTCT
1 ATTTTTCT
1747779 AAGTTGTCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 8 0.33
21 16 0.67
ACGTcount: A:0.10, C:0.04, G:0.06, T:0.80
Consensus pattern (22 bp):
ATTTTTCTTATTTTTTGATTGT
Found at i:1752618 original size:25 final size:26
Alignment explanation
Indices: 1752575--1752625 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
1752565 TTCAAAATTT
* *
1752575 TATAATTATCAATAGTGTATTTTTAA
1 TATAATTATCAATAATGTAATTTTAA
*
1752601 TATATTTAT-AATAATGTAATTTTAA
1 TATAATTATCAATAATGTAATTTTAA
1752626 AAATCTAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 14 0.64
26 8 0.36
ACGTcount: A:0.41, C:0.02, G:0.06, T:0.51
Consensus pattern (26 bp):
TATAATTATCAATAATGTAATTTTAA
Found at i:1755599 original size:164 final size:163
Alignment explanation
Indices: 1755331--1755659 Score: 599
Period size: 164 Copynumber: 2.0 Consensus size: 163
1755321 ACCAACTGGA
1755331 TTGATGACATCTTGACACAGGTGAAAAGATTCCTCGAAATCATTCCCTACTTCTGATTGCAATAT
1 TTGATGACATCTTGACACAGGTGAAAAGATTCCTCGAAATCATTCCCTACTTCTGATTGCAATAT
1755396 TTAACAACAATTCTAGCATTATGCATTAGCTTGTGTATACCCACTTACTTTTCAAAGCAC-CTTC
66 TTAACAACAATTCTAGCATTATGCATTAGCTTGTGTATACCCACTTACTTTTCAAAGCACACTTC
*
1755460 ATTTGGGTAACTC-AAAAGATCATAAGTTGATT
131 ATTTGGGTAACTCAAAAAGATCATAAGTCGATT
1755492 TTGATGACATCTTGACCACAGGTGAAAAGATTTCCTCGAAATCAATTCCCTACTTCTGATTGCAA
1 TTGATGACATCTTGA-CACAGGTGAAAAGA-TTCCTCGAAATC-ATTCCCTACTTCTGATTGCAA
1755557 TATTTAACAACAATTCTAGCATTATGCATTAGCTTGTGTATACCCACTTACTTTTCAAAGCACAT
63 TATTTAACAACAATTCTAGCATTATGCATTAGCTTGTGTATACCCACTTACTTTTCAAAGCACA-
1755622 CTTCATTTGGGTAACTCAAAAAGATCATAAGTCGATT
127 CTTCATTTGGGTAACTCAAAAAGATCATAAGTCGATT
1755659 T
1 T
1755660 CAAGCAAATA
Statistics
Matches: 161, Mismatches: 1, Indels: 6
0.96 0.01 0.04
Matches are distributed among these distances:
161 15 0.09
162 14 0.09
163 12 0.07
164 84 0.52
166 17 0.11
167 19 0.12
ACGTcount: A:0.32, C:0.21, G:0.13, T:0.34
Consensus pattern (163 bp):
TTGATGACATCTTGACACAGGTGAAAAGATTCCTCGAAATCATTCCCTACTTCTGATTGCAATAT
TTAACAACAATTCTAGCATTATGCATTAGCTTGTGTATACCCACTTACTTTTCAAAGCACACTTC
ATTTGGGTAACTCAAAAAGATCATAAGTCGATT
Found at i:1756737 original size:63 final size:62
Alignment explanation
Indices: 1756651--1756806 Score: 185
Period size: 63 Copynumber: 2.5 Consensus size: 62
1756641 TGTTTGAATG
* * **
1756651 TGCACCGATGCAT-TGGTGCATCGATGCA-CTCTTTTAA-AATAAAAACATCGAATGCAATTCA
1 TGCATCGATGCATAAGGTGCATCGATGCATC-CCATTAATAAT-AAAACATCGAATGCAATTCA
* **
1756712 TGCATCGATGCATAAGTAGTG-ATCGATGCATCCCATTAATAATGAAACATCGAATGCAATTGG
1 TGCATCGATGCATAAG--GTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTCA
1756775 TGCATCGATGCATAAGGTGCATCGATGCATCC
1 TGCATCGATGCATAAGGTGCATCGATGCATCC
1756807 AGCAATAATA
Statistics
Matches: 82, Mismatches: 7, Indels: 11
0.82 0.07 0.11
Matches are distributed among these distances:
61 15 0.18
62 13 0.16
63 47 0.57
64 7 0.09
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.27
Consensus pattern (62 bp):
TGCATCGATGCATAAGGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTCA
Found at i:1757596 original size:31 final size:31
Alignment explanation
Indices: 1757372--1757593 Score: 417
Period size: 31 Copynumber: 7.2 Consensus size: 31
1757362 AGAGTCGAGG
1757372 GTTTACATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
1757403 GTTTACATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
1757434 GTTTACATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
1757465 GTTTACATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
* *
1757496 GTTTACATATGTTTAAAGGTACATATAAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
1757527 GTTTACATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
*
1757558 GTTTATATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
1757589 GTTTA
1 GTTTA
1757594 TATTGTGACC
Statistics
Matches: 186, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 186 1.00
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.34
Consensus pattern (31 bp):
GTTTACATATGTTTAAAGGCACATATGAACA
Found at i:1761691 original size:6 final size:6
Alignment explanation
Indices: 1761680--1761720 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
1761670 ATTTCATTCT
* *
1761680 CTCGCA CTCGCA CTCGCA CTCGCA CTCGCA CGCGTA CTCGC
1 CTCGCA CTCGCA CTCGCA CTCGCA CTCGCA CTCGCA CTCGC
1761721 TAGGCTAGCG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.15, C:0.49, G:0.20, T:0.17
Consensus pattern (6 bp):
CTCGCA
Found at i:1768115 original size:13 final size:13
Alignment explanation
Indices: 1768097--1768122 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1768087 TTTATAAATA
1768097 ATTATAAATATAT
1 ATTATAAATATAT
1768110 ATTATAAATATAT
1 ATTATAAATATAT
1768123 TATTTAATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
ATTATAAATATAT
Found at i:1769526 original size:21 final size:21
Alignment explanation
Indices: 1769497--1769547 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
1769487 TTCCAGATTC
*
1769497 GCAACGCGAACATCGACTATA
1 GCAATGCGAACATCGACTATA
* *
1769518 GCAATGCGAACTTCGACTATC
1 GCAATGCGAACATCGACTATA
1769539 GCAATGCGA
1 GCAATGCGA
1769548 TTTTCCAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.33, C:0.27, G:0.22, T:0.18
Consensus pattern (21 bp):
GCAATGCGAACATCGACTATA
Found at i:1769600 original size:21 final size:21
Alignment explanation
Indices: 1769576--1769625 Score: 68
Period size: 19 Copynumber: 2.5 Consensus size: 21
1769566 ATAGTCTAAA
*
1769576 TTCGCGTTGCGATAATCCATG
1 TTCGCGTTGCGATAATCCAAG
*
1769597 TT--CGTTGCGATAATCGAAG
1 TTCGCGTTGCGATAATCCAAG
1769616 TTCGCGTTGC
1 TTCGCGTTGC
1769626 AATTTATTCC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 17 0.68
21 8 0.32
ACGTcount: A:0.18, C:0.22, G:0.26, T:0.34
Consensus pattern (21 bp):
TTCGCGTTGCGATAATCCAAG
Found at i:1773300 original size:17 final size:18
Alignment explanation
Indices: 1773280--1773317 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
1773270 TTTAAATATT
1773280 TTATATTACT-TTTTAAA
1 TTATATTACTGTTTTAAA
**
1773297 TTATATTTTTGTTTTAAA
1 TTATATTACTGTTTTAAA
1773315 TTA
1 TTA
1773318 ATTTTTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.63
Consensus pattern (18 bp):
TTATATTACTGTTTTAAA
Found at i:1773313 original size:18 final size:17
Alignment explanation
Indices: 1773290--1773323 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
1773280 TTATATTACT
1773290 TTTTAAATTATATTTTTG
1 TTTTAAATTA-ATTTTTG
1773308 TTTTAAATTAATTTTT
1 TTTTAAATTAATTTTT
1773324 AAAATATTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (17 bp):
TTTTAAATTAATTTTTG
Found at i:1777690 original size:30 final size:30
Alignment explanation
Indices: 1777656--1777716 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
1777646 TGCTTGGTCG
*
1777656 TTGGAGATTTGTTAAATTTTTCTTAACGTT
1 TTGGAGATTTGTTAAATTTTTCCTAACGTT
1777686 TTGGAGATTTGTTAAATTTTTCCTAACGTT
1 TTGGAGATTTGTTAAATTTTTCCTAACGTT
1777716 T
1 T
1777717 CGTTAGCAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.23, C:0.08, G:0.16, T:0.52
Consensus pattern (30 bp):
TTGGAGATTTGTTAAATTTTTCCTAACGTT
Found at i:1778618 original size:21 final size:23
Alignment explanation
Indices: 1778573--1778625 Score: 65
Period size: 21 Copynumber: 2.3 Consensus size: 23
1778563 GTCATTTTAA
1778573 TAAAATATTATGATTAACATATT
1 TAAAATATTATGATTAACATATT
* *
1778596 TAAAATATT-T-ATTAATATTTT
1 TAAAATATTATGATTAACATATT
1778617 TAATAATAT
1 TAA-AATAT
1778626 AATAATAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 12 0.44
22 6 0.22
23 9 0.33
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (23 bp):
TAAAATATTATGATTAACATATT
Found at i:1778682 original size:14 final size:14
Alignment explanation
Indices: 1778608--1778700 Score: 55
Period size: 14 Copynumber: 6.4 Consensus size: 14
1778598 AAATATTTAT
1778608 TAATATT-TT-TAA
1 TAATATTATTATAA
* *
1778620 TAATATAATAATAA
1 TAATATTATTATAA
*
1778634 TAATATTATTACAA
1 TAATATTATTATAA
1778648 TAATATACTCAATTATATA
1 TAATAT--T--ATTATA-A
* *
1778667 TAATAATATTATTA
1 TAATATTATTATAA
* * *
1778681 TATTCTTATTTTAA
1 TAATATTATTATAA
1778695 TAATAT
1 TAATAT
1778701 ATAATAACTT
Statistics
Matches: 59, Mismatches: 15, Indels: 12
0.69 0.17 0.14
Matches are distributed among these distances:
12 6 0.10
13 1 0.02
14 34 0.58
15 5 0.08
16 1 0.02
17 1 0.02
18 5 0.08
19 6 0.10
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.48
Consensus pattern (14 bp):
TAATATTATTATAA
Found at i:1778968 original size:29 final size:33
Alignment explanation
Indices: 1778905--1778973 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 33
1778895 ATAATTTATC
*
1778905 ATATTTTTATTTTAATAGAATATACTAGAATTA
1 ATATTTTTATTTTAATAAAATATACTAGAATTA
1778938 ATATTTTTA-TTT-ATAAAAT-TA-TAG-ATATA
1 ATATTTTTATTTTAATAAAATATACTAGAAT-TA
1778967 ATATTTT
1 ATATTTT
1778974 AATAATAATA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
28 2 0.06
29 12 0.35
30 2 0.06
31 6 0.18
32 3 0.09
33 9 0.26
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.52
Consensus pattern (33 bp):
ATATTTTTATTTTAATAAAATATACTAGAATTA
Found at i:1779408 original size:20 final size:20
Alignment explanation
Indices: 1779314--1779659 Score: 441
Period size: 20 Copynumber: 17.4 Consensus size: 20
1779304 GATTTTCCAT
* ** *
1779314 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
1779334 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
1779354 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
1779374 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
1779394 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
1779414 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
1779434 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
1779454 AATCGCAACGCGTATCCGT-
1 AATCGCAACGCGTATCCGTA
* *
1779473 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
1779493 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
1779513 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
1779533 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
1779553 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
1779573 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
1779593 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
1779613 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
1779633 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
1779653 AATCGCA
1 AATCGCA
1779660 CGAGAATCTG
Statistics
Matches: 286, Mismatches: 32, Indels: 16
0.86 0.10 0.05
Matches are distributed among these distances:
19 20 0.07
20 263 0.92
21 3 0.01
ACGTcount: A:0.34, C:0.27, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:1780598 original size:12 final size:12
Alignment explanation
Indices: 1780581--1780605 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1780571 ATATAATCCT
1780581 GAAGAAGAAAAA
1 GAAGAAGAAAAA
1780593 GAAGAAGAAAAA
1 GAAGAAGAAAAA
1780605 G
1 G
1780606 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:1782154 original size:14 final size:14
Alignment explanation
Indices: 1782135--1782224 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
1782125 TTGAAATGAA
1782135 AATCGCAACGAGAG
1 AATCGCAACGAGAG
1782149 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
1782166 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
1782182 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
1782201 AATCGCAACGAGAG
1 AATCGCAACGAGAG
1782215 AATCGCAACG
1 AATCGCAACG
1782225 CGAAATGAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.42, C:0.23, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:1782172 original size:33 final size:33
Alignment explanation
Indices: 1782127--1782241 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
1782117 TCTTTTGGTT
1782127 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
1782160 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1782193 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1782226 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
1782242 TGCGATTTTG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:1782173 original size:19 final size:18
Alignment explanation
Indices: 1782134--1782246 Score: 88
Period size: 19 Copynumber: 6.8 Consensus size: 18
1782124 GTTGAAATGA
1782134 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
1782149 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
1782166 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
1782182 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
1782199 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
*
1782215 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
1782232 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
1782247 TTTTGGTTTC
Statistics
Matches: 79, Mismatches: 4, Indels: 26
0.72 0.04 0.24
Matches are distributed among these distances:
14 24 0.30
16 15 0.19
17 12 0.15
19 28 0.35
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:1782277 original size:14 final size:14
Alignment explanation
Indices: 1782258--1782312 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
1782248 TTTGGTTTCG
1782258 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
1782272 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
1782291 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
1782305 CGTTGCGA
1 CGTTGCGA
1782313 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.09, C:0.25, G:0.24, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:1782290 original size:33 final size:33
Alignment explanation
Indices: 1782242--1782312 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
1782232 AAAATCGCAA
**
1782242 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1782275 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1782308 TGCGA
1 TGCGA
1782313 CAGTCATTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.08, C:0.23, G:0.25, T:0.44
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:1782320 original size:33 final size:33
Alignment explanation
Indices: 1782253--1782334 Score: 119
Period size: 33 Copynumber: 2.5 Consensus size: 33
1782243 GCGATTTTGG
***
1782253 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
1782286 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
*
1782319 TTCTCTCGTTGCGATT
1 TT-TCGCGTTGCGATT
1782335 TTCATTTATC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 32 0.73
34 12 0.27
ACGTcount: A:0.10, C:0.26, G:0.22, T:0.43
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
Found at i:1782339 original size:20 final size:20
Alignment explanation
Indices: 1782265--1782353 Score: 75
Period size: 20 Copynumber: 4.8 Consensus size: 20
1782255 TCGCGTTGCG
1782265 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
1782285 ATT-TCGCGTTGCG------
1 ATTCTCTCGTTGCGATTTTC
***
1782298 ATTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTC
1782318 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
1782338 ATTTATCTCGTTGCGA
1 A-TTCTCTCGTTGCGA
1782354 CTCTTCTGCA
Statistics
Matches: 55, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
13 3 0.05
14 9 0.16
19 9 0.16
20 21 0.38
21 13 0.24
ACGTcount: A:0.12, C:0.25, G:0.19, T:0.44
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:1782475 original size:33 final size:33
Alignment explanation
Indices: 1782433--1782503 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
1782423 AATACTAACT
*
1782433 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
1782466 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
1782499 TGAAA
1 TGAAA
1782504 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:1782736 original size:22 final size:22
Alignment explanation
Indices: 1782684--1782738 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
1782674 TGGTTGTGAG
**
1782684 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
1782706 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
1782728 GGATTTCTTCG
1 GGATTTCTTCG
1782739 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:1782909 original size:20 final size:20
Alignment explanation
Indices: 1782884--1783076 Score: 219
Period size: 20 Copynumber: 9.6 Consensus size: 20
1782874 CTTTAAATAT
1782884 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
1782904 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
1782926 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
1782945 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
1782965 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
1782985 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
1783005 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
1783025 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
1783045 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
1783065 CGCGTTGCGATT
1 CGCGTTGCGATT
1783077 ATGGAAAATC
Statistics
Matches: 146, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 127 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:1783071 original size:60 final size:60
Alignment explanation
Indices: 1782884--1783076 Score: 251
Period size: 60 Copynumber: 3.2 Consensus size: 60
1782874 CTTTAAATAT
**
1782884 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
1782945 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
1783005 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
1783065 CGCGTTGCGATT
1 CGCGTTGCGATT
1783077 ATGGAAAATC
Statistics
Matches: 111, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 83 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:1783157 original size:20 final size:20
Alignment explanation
Indices: 1783132--1783183 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
1783122 AAGAATCGCG
*
1783132 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
1783152 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
1783172 TTGCGATTCTGG
1 TTGCGATTCTGG
1783184 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:1787204 original size:27 final size:27
Alignment explanation
Indices: 1787163--1787217 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
1787153 ATCAACGGCT
*
1787163 CGTGATTCTTCAATTATTAGTGCATGG
1 CGTGATTCTTAAATTATTAGTGCATGG
*
1787190 CGTGATTCTTAAATTATTGGTGCATGG
1 CGTGATTCTTAAATTATTAGTGCATGG
1787217 C
1 C
1787218 AGCCGACCCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.22, C:0.15, G:0.24, T:0.40
Consensus pattern (27 bp):
CGTGATTCTTAAATTATTAGTGCATGG
Found at i:1787429 original size:17 final size:17
Alignment explanation
Indices: 1787407--1787442 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
1787397 TTATTAGTTT
1787407 GTTAGTTTAGGGTTAGG
1 GTTAGTTTAGGGTTAGG
1787424 GTTAGTTTAGGGTTAGG
1 GTTAGTTTAGGGTTAGG
1787441 GT
1 GT
1787443 AAAAATTTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.17, C:0.00, G:0.42, T:0.42
Consensus pattern (17 bp):
GTTAGTTTAGGGTTAGG
Found at i:1787645 original size:30 final size:30
Alignment explanation
Indices: 1787577--1787681 Score: 142
Period size: 30 Copynumber: 3.5 Consensus size: 30
1787567 TTTAGTTAAT
*
1787577 TAGTTTTTTAGTAGTGAA-TTATAATTAAA-AA
1 TAGTTTATTAGT--TGAAGTTAT-ATTAAAGAA
* *
1787608 TATTTTATTAGTTTAAGTTATATTAAAGAA
1 TAGTTTATTAGTTGAAGTTATATTAAAGAA
1787638 TAGTTTATTAGTTGAAGTTATATTAAAGAA
1 TAGTTTATTAGTTGAAGTTATATTAAAGAA
1787668 TAGTTTATTAGTTG
1 TAGTTTATTAGTTG
1787682 TTTAAAGAAA
Statistics
Matches: 67, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
29 9 0.13
30 48 0.72
31 10 0.15
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.48
Consensus pattern (30 bp):
TAGTTTATTAGTTGAAGTTATATTAAAGAA
Found at i:1787646 original size:15 final size:16
Alignment explanation
Indices: 1787623--1787677 Score: 55
Period size: 15 Copynumber: 3.6 Consensus size: 16
1787613 TATTAGTTTA
1787623 AGTTATATTAAAGAAT
1 AGTTATATTAAAGAAT
**
1787639 AGTT-TATTAGTTG-A-
1 AGTTATATTA-AAGAAT
1787653 AGTTATATTAAAGAAT
1 AGTTATATTAAAGAAT
1787669 AGTT-TATTA
1 AGTTATATTA
1787678 GTTGTTTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 9
0.70 0.09 0.20
Matches are distributed among these distances:
14 5 0.16
15 17 0.55
16 9 0.29
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.44
Consensus pattern (16 bp):
AGTTATATTAAAGAAT
Found at i:1787762 original size:15 final size:16
Alignment explanation
Indices: 1787734--1787765 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
1787724 GTTTGTTACT
1787734 TTATAAGTTTATTATA
1 TTATAAGTTTATTATA
1787750 TTATAAG-TTATTATA
1 TTATAAGTTTATTATA
1787765 T
1 T
1787766 AAATTTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (16 bp):
TTATAAGTTTATTATA
Found at i:1789932 original size:25 final size:25
Alignment explanation
Indices: 1789904--1789952 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
1789894 ATATTTATAA
1789904 TAAATCATTACTATCAAATCATTAT
1 TAAATCATTACTATCAAATCATTAT
1789929 TAAATCATTACTATCAAATCATTA
1 TAAATCATTACTATCAAATCATTA
1789953 AAAATTAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.45, C:0.16, G:0.00, T:0.39
Consensus pattern (25 bp):
TAAATCATTACTATCAAATCATTAT
Found at i:1789935 original size:11 final size:14
Alignment explanation
Indices: 1789905--1789952 Score: 75
Period size: 14 Copynumber: 3.6 Consensus size: 14
1789895 TATTTATAAT
1789905 AAATCATTACTATC
1 AAATCATTACTATC
1789919 AAATCATTA-T-T-
1 AAATCATTACTATC
1789930 AAATCATTACTATC
1 AAATCATTACTATC
1789944 AAATCATTA
1 AAATCATTA
1789953 AAAATTAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
11 9 0.29
12 2 0.06
13 2 0.06
14 18 0.58
ACGTcount: A:0.46, C:0.17, G:0.00, T:0.38
Consensus pattern (14 bp):
AAATCATTACTATC
Found at i:1789984 original size:60 final size:60
Alignment explanation
Indices: 1789920--1790221 Score: 444
Period size: 60 Copynumber: 5.2 Consensus size: 60
1789910 ATTACTATCA
* * *
1789920 AATCATTATTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTAATTATTACT
1 AATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAACAATTTCATTATTACT
*
1789980 AATCATTACTAAATCATTACTATCAAATCATTAAATATTAATAACAATTTCATTATTACT
1 AATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAACAATTTCATTATTACT
*
1790040 AATCATTACTAAATCATTACTATCAAATCATTAAATATTAATAACAATTTCATTATTACT
1 AATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAACAATTTCATTATTACT
* *
1790100 AATCATTATTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTC------A-T
1 AATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAACAATTTCATTATTACT
* *
1790153 --T-ATTACTAAATCATTACTATCAAATCTTTAAAAATTAATAATAATTTCATTATTACT
1 AATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAACAATTTCATTATTACT
1790210 AAATCATTACTA
1 -AATCATTACTA
1790222 TCAAATCATT
Statistics
Matches: 222, Mismatches: 9, Indels: 21
0.88 0.04 0.08
Matches are distributed among these distances:
50 45 0.20
51 1 0.00
53 1 0.00
54 1 0.00
56 1 0.00
57 1 0.00
60 165 0.74
61 7 0.03
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.41
Consensus pattern (60 bp):
AATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAACAATTTCATTATTACT
Found at i:1789998 original size:21 final size:22
Alignment explanation
Indices: 1789974--1790125 Score: 75
Period size: 21 Copynumber: 7.5 Consensus size: 22
1789964 TAATTTAATT
1789974 ATTACTAATC-ATTACTAAATC
1 ATTACTAATCAATTACTAAATC
* *
1789995 ATTACT-ATCAAATCATTAAAT-
1 ATTACTAATC-AATTACTAAATC
* * *
1790016 ATTAATAA-CAATT--T-CATT
1 ATTACTAATCAATTACTAAATC
1790034 ATTACTAATC-ATTACTAAATC
1 ATTACTAATCAATTACTAAATC
* *
1790055 ATTACT-ATCAAATCATTAAAT-
1 ATTACTAATC-AATTACTAAATC
* * *
1790076 ATTAATAA-CAATT--T-CATT
1 ATTACTAATCAATTACTAAATC
*
1790094 ATTACTAATC-ATTATTAAATC
1 ATTACTAATCAATTACTAAATC
1790115 ATTACT-ATCAA
1 ATTACTAATCAA
1790126 ATCATTAAAA
Statistics
Matches: 98, Mismatches: 16, Indels: 34
0.66 0.11 0.23
Matches are distributed among these distances:
17 4 0.04
18 22 0.22
19 2 0.02
20 17 0.17
21 35 0.36
22 18 0.18
ACGTcount: A:0.45, C:0.15, G:0.00, T:0.40
Consensus pattern (22 bp):
ATTACTAATCAATTACTAAATC
Found at i:1790058 original size:120 final size:113
Alignment explanation
Indices: 1789924--1790770 Score: 1064
Period size: 120 Copynumber: 7.6 Consensus size: 113
1789914 CTATCAAATC
* *
1789924 ATTATTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTAATTATTACTAATCATTAC
1 ATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTAC
*
1789989 TAAATCATTACTATCAAATCATTAAATATTAATAACAATTTCATTATTACTAAT
66 TAAATCATTACTATCAAATCATTAAATATTAATAATAATTTC---ATTA-T--T
* *
1790043 CATTACTAAATCATTACTATCAAATCATTAAATATTAATAACAATTTCATTATTACTAATCATTA
1 -ATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTA
* *
1790108 TTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTC---ATT
65 CTAAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATT
*
1790154 ATTACTAAATCATTACTATCAAATCTTTAAAAATTAATAATAATTTC------A-T--T-ATTAC
1 ATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTAC
*
1790209 TAAATCATTACTATCAAATCATTAAATATTAATAACAATTTC---ATT
66 TAAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATT
* *
1790254 ATTACT-AATCATTACTATCAAATCATTAAATATTAATAACAATTTCATTATTACTAATCATTAC
1 ATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTAC
* *
1790318 TAAATAATTACTATCAAATCATTAAATATTAATAACAATTTCATTATTACT
66 TAAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTA-T--T
*
1790369 AATCGTTATTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCA
1 -A---TTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCA
* *
1790434 TTACTAAATCATTAATATCAAATCATTAAAAATTAATAATAATTTC---ATT
62 TTACTAAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATT
1790483 ATTACT-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTAC
1 ATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTAC
*
1790547 T--ATCA--A--AT----T-ATTAAAAATTAATAATAATTTC---ATT
66 TAAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATT
1790581 ATTACT-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTAC
1 ATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTAC
*
1790645 TAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAAT
66 TAAATCATTACTATCAAATCATTAAATATTAATAATAATTTC---ATTA-T--T
* * *
1790699 CATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATCATTACTAATCATTG
1 -ATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTA
1790764 CTAAATC
65 CTAAATC
1790771 TTATAAATAC
Statistics
Matches: 655, Mismatches: 29, Indels: 86
0.85 0.04 0.11
Matches are distributed among these distances:
98 90 0.14
99 38 0.06
100 57 0.09
101 1 0.00
102 1 0.00
103 3 0.00
104 3 0.00
105 2 0.00
106 1 0.00
107 4 0.01
108 2 0.00
109 126 0.19
110 48 0.07
111 1 0.00
112 1 0.00
113 3 0.00
114 2 0.00
115 2 0.00
116 3 0.00
117 1 0.00
118 1 0.00
119 10 0.02
120 255 0.39
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.41
Consensus pattern (113 bp):
ATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTAC
TAAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATT
Found at i:1790283 original size:49 final size:50
Alignment explanation
Indices: 1790104--1790370 Score: 383
Period size: 50 Copynumber: 5.2 Consensus size: 50
1790094 ATTACTAATC
* * *
1790104 ATTATTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
1 ATTACTAAATCATTACTATCAAATCATTAAATATTAATAACAATTTCATT
* * *
1790154 ATTACTAAATCATTACTATCAAATCTTTAAAAATTAATAATAATTTCATT
1 ATTACTAAATCATTACTATCAAATCATTAAATATTAATAACAATTTCATT
1790204 ATTACTAAATCATTACTATCAAATCATTAAATATTAATAACAATTTCATT
1 ATTACTAAATCATTACTATCAAATCATTAAATATTAATAACAATTTCATT
1790254 ATTACT-AATCATTACTATCAAATCATTAAATATTAATAACAATTTCATT
1 ATTACTAAATCATTACTATCAAATCATTAAATATTAATAACAATTTCATT
1790303 ATTACTAATCATTACTAAATAATTACTATCAAATCATTAAATATTAATAACAATTTCATT
1 ATTACTAA--A-T-C------ATTACTATCAAATCATTAAATATTAATAACAATTTCATT
1790363 ATTACTAA
1 ATTACTAA
1790371 TCGTTATTAA
Statistics
Matches: 201, Mismatches: 5, Indels: 12
0.92 0.02 0.06
Matches are distributed among these distances:
49 49 0.24
50 102 0.51
52 1 0.00
53 1 0.00
54 1 0.00
60 47 0.23
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.41
Consensus pattern (50 bp):
ATTACTAAATCATTACTATCAAATCATTAAATATTAATAACAATTTCATT
Found at i:1790332 original size:60 final size:60
Alignment explanation
Indices: 1790254--1790499 Score: 413
Period size: 60 Copynumber: 4.1 Consensus size: 60
1790244 CAATTTCATT
* *
1790254 ATTACT-AATCATTACTATCAAATCATTAAATATTAATAACAATTTCATTATTACTAATC
1 ATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
* * *
1790313 ATTACTAAATAATTACTATCAAATCATTAAATATTAATAACAATTTCATTATTACTAATC
1 ATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
* *
1790373 GTTATTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
1 ATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
*
1790433 ATTACTAAATCATTAATATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
1 ATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
1790493 ATTACTA
1 ATTACTA
1790500 TCAAATCATT
Statistics
Matches: 177, Mismatches: 9, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
59 6 0.03
60 171 0.97
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.41
Consensus pattern (60 bp):
ATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
Found at i:1790348 original size:21 final size:20
Alignment explanation
Indices: 1790209--1790408 Score: 70
Period size: 21 Copynumber: 9.4 Consensus size: 20
1790199 TCATTATTAC
1790209 TAAATCATTACTATCAAATCAT
1 TAAAT-ATTACTATC-AATCAT
* *
1790231 TAAATATTAATAACAATTTCATTAT
1 TAAATATTACTATCAA--TC---AT
1790256 TACTAATCATTACTATCAAATCAT
1 TA--AAT-ATTACTATC-AATCAT
* *
1790280 TAAATATTAATAACAAT--T
1 TAAATATTACTATCAATCAT
* * * *
1790298 TCATTATTACTAATC-ATTAC
1 TAAATATTACT-ATCAATCAT
1790318 TAAATAATTACTATCAAATCAT
1 TAAAT-ATTACTATC-AATCAT
* *
1790340 TAAATATTAATAACAAT--T
1 TAAATATTACTATCAATCAT
* * * *
1790358 TCATTATTACTAATC-GTTAT
1 TAAATATTACT-ATCAATCAT
1790378 TAAATCATTACTATCAAATCAT
1 TAAAT-ATTACTATC-AATCAT
*
1790400 TAAAAATTA
1 TAAATATTA
1790409 ATAATAATTT
Statistics
Matches: 130, Mismatches: 27, Indels: 43
0.65 0.14 0.22
Matches are distributed among these distances:
18 21 0.16
19 4 0.03
20 21 0.16
21 37 0.28
22 25 0.19
24 4 0.03
25 4 0.03
27 5 0.04
28 7 0.05
29 2 0.02
ACGTcount: A:0.46, C:0.14, G:0.01, T:0.40
Consensus pattern (20 bp):
TAAATATTACTATCAATCAT
Found at i:1790459 original size:25 final size:25
Alignment explanation
Indices: 1790429--1790510 Score: 69
Period size: 25 Copynumber: 3.3 Consensus size: 25
1790419 CATTATTACT
1790429 AATCATTACTAAATCATTAATATCA
1 AATCATTACTAAATCATTAATATCA
* * * **
1790454 AATCATTA-AAAATTAATAATAATTT
1 AATCATTACTAAATCATTAAT-ATCA
* * *
1790479 CATTATTACT-AATCATTACTATCA
1 AATCATTACTAAATCATTAATATCA
1790503 AATCATTA
1 AATCATTA
1790511 AAAATTAATA
Statistics
Matches: 40, Mismatches: 15, Indels: 5
0.67 0.25 0.08
Matches are distributed among these distances:
24 17 0.43
25 23 0.57
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (25 bp):
AATCATTACTAAATCATTAATATCA
Found at i:1790470 original size:21 final size:21
Alignment explanation
Indices: 1790444--1790520 Score: 57
Period size: 21 Copynumber: 3.3 Consensus size: 21
1790434 TTACTAAATC
1790444 ATTAATATCAAATCATTAAAA
1 ATTAATATCAAATCATTAAAA
*
1790465 ATTAATAAT-AATTTCATTATTACTAA
1 ATTAAT-ATCAA-ATCATTA--A--AA
*
1790491 TCATTACTATCAAATCATTAAAA
1 --ATTAATATCAAATCATTAAAA
1790514 ATTAATA
1 ATTAATA
1790521 ATAATTTCAT
Statistics
Matches: 43, Mismatches: 4, Indels: 18
0.66 0.06 0.28
Matches are distributed among these distances:
21 14 0.33
22 8 0.19
23 2 0.05
24 1 0.02
25 1 0.02
26 2 0.05
27 8 0.19
28 7 0.16
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.39
Consensus pattern (21 bp):
ATTAATATCAAATCATTAAAA
Found at i:1790502 original size:49 final size:49
Alignment explanation
Indices: 1790433--1790646 Score: 401
Period size: 49 Copynumber: 4.3 Consensus size: 49
1790423 ATTACTAATC
*
1790433 ATTACTAAATCATTAATATCAAATCATTAAAAATTAATAATAATTTCATT
1 ATTACT-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
1790483 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
1 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
*
1790532 ATTACTAATCATTACTATCAAATTATTAAAAATTAATAATAATTTCATT
1 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
1790581 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
1 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
1790630 ATTACTAATCATTACTA
1 ATTACTAATCATTACTA
1790647 AATCATTAAT
Statistics
Matches: 161, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
49 155 0.96
50 6 0.04
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (49 bp):
ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
Found at i:1790654 original size:21 final size:21
Alignment explanation
Indices: 1790630--1790717 Score: 60
Period size: 21 Copynumber: 4.3 Consensus size: 21
1790620 TAATTTCATT
1790630 ATTACTAATCATTACTAAATC
1 ATTACTAATCATTACTAAATC
* * *
1790651 ATTAAT-ATCAAATCATTAAAT-
1 ATTACTAATC--ATTACTAAATC
* * * *
1790672 ATTAATAATAATT--T-CATT
1 ATTACTAATCATTACTAAATC
1790690 ATTACTAATCATTACTAAATC
1 ATTACTAATCATTACTAAATC
1790711 ATTACTA
1 ATTACTA
1790718 TCAAATCATT
Statistics
Matches: 50, Mismatches: 10, Indels: 14
0.68 0.14 0.19
Matches are distributed among these distances:
17 2 0.04
18 12 0.24
20 6 0.12
21 20 0.40
22 10 0.20
ACGTcount: A:0.45, C:0.14, G:0.00, T:0.41
Consensus pattern (21 bp):
ATTACTAATCATTACTAAATC
Found at i:1790661 original size:60 final size:60
Alignment explanation
Indices: 1790581--1790770 Score: 337
Period size: 60 Copynumber: 3.2 Consensus size: 60
1790571 TAATTTCATT
*
1790581 ATTACT-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
1 ATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
*
1790640 ATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
1 ATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
*
1790700 ATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATCATTACTAATC
1 ATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
*
1790760 ATTGCTAAATC
1 ATTACTAAATC
1790771 TTATAAATAC
Statistics
Matches: 125, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
59 6 0.05
60 119 0.95
ACGTcount: A:0.45, C:0.14, G:0.01, T:0.41
Consensus pattern (60 bp):
ATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
Found at i:1793692 original size:26 final size:25
Alignment explanation
Indices: 1793633--1793692 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
1793623 ACTAATATTA
*
1793633 TTAATAATGATTTAATAATTATTAT
1 TTAATAATGATTTAATAATTATGAT
* * *
1793658 TTATCTAATGATTTGATATTTAATGAT
1 TTA-ATAATGATTTAATAATT-ATGAT
1793685 TTAATAAT
1 TTAATAAT
1793693 AATATGATTT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
25 3 0.11
26 18 0.64
27 7 0.25
ACGTcount: A:0.40, C:0.02, G:0.07, T:0.52
Consensus pattern (25 bp):
TTAATAATGATTTAATAATTATGAT
Found at i:1793981 original size:17 final size:17
Alignment explanation
Indices: 1793928--1793987 Score: 57
Period size: 17 Copynumber: 3.3 Consensus size: 17
1793918 AATATAAATA
*
1793928 AAACAAAATATTTTTTT
1 AAACACAATATTTTTTT
* *
1793945 AAAACAACACTAAATATTTTT
1 -AAAC-ACA--ATATTTTTTT
1793966 AAACACAATATTTTTTT
1 AAACACAATATTTTTTT
1793983 AAACA
1 AAACA
1793988 AAAATTATCT
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
17 13 0.38
18 4 0.12
19 5 0.15
20 4 0.12
21 8 0.24
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (17 bp):
AAACACAATATTTTTTT
Found at i:1794513 original size:21 final size:21
Alignment explanation
Indices: 1794480--1794528 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
1794470 AATATAATAT
1794480 ATAACTTAAACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
* *
1794501 ATAATTTATACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
1794522 ATTAACT
1 A-TAACT
1794529 AAATTTTAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (21 bp):
ATAACTTAAACTAACAAACTA
Found at i:1795051 original size:13 final size:13
Alignment explanation
Indices: 1795033--1795059 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1795023 TGATGATGCA
1795033 GACCTACCATGTC
1 GACCTACCATGTC
1795046 GACCTACCATGTC
1 GACCTACCATGTC
1795059 G
1 G
1795060 TCGGGACTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.37, G:0.19, T:0.22
Consensus pattern (13 bp):
GACCTACCATGTC
Found at i:1795096 original size:25 final size:27
Alignment explanation
Indices: 1795038--1795106 Score: 79
Period size: 29 Copynumber: 2.6 Consensus size: 27
1795028 ATGCAGACCT
* *
1795038 ACCATGTCGACCTACCATGTCGTCGGG
1 ACCATGGCGACCTACCATGTCGTCCGG
1795065 ACTCCATGGCGACCTACCATGTCG-CCGG
1 A--CCATGGCGACCTACCATGTCGTCCGG
*
1795093 -CCATGGCAACCTAC
1 ACCATGGCGACCTAC
1795107 GATAGAACCG
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
25 13 0.35
27 1 0.03
28 3 0.08
29 20 0.54
ACGTcount: A:0.20, C:0.38, G:0.23, T:0.19
Consensus pattern (27 bp):
ACCATGGCGACCTACCATGTCGTCCGG
Found at i:1795364 original size:12 final size:12
Alignment explanation
Indices: 1795347--1795372 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1795337 TGCATGGCGA
1795347 CCTTATAGGACG
1 CCTTATAGGACG
1795359 CCTTATAGGACG
1 CCTTATAGGACG
1795371 CC
1 CC
1795373 GGGCGTGCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.31, G:0.23, T:0.23
Consensus pattern (12 bp):
CCTTATAGGACG
Found at i:1797005 original size:2 final size:2
Alignment explanation
Indices: 1796998--1797024 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1796988 TTTATTTATT
1796998 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 T
1797025 TTTATTTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1797175 original size:29 final size:30
Alignment explanation
Indices: 1797132--1797190 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
1797122 TTTGAGTTAC
*
1797132 GAAATAAAACGTTAGACACCAAACTTGAAT
1 GAAATAAAACGTTAGACACCAAACTGGAAT
*
1797162 GAAAT-AAACGTTAGACACTAAACTGGAAT
1 GAAATAAAACGTTAGACACCAAACTGGAAT
1797191 CAAAAGCATA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 22 0.81
30 5 0.19
ACGTcount: A:0.49, C:0.15, G:0.15, T:0.20
Consensus pattern (30 bp):
GAAATAAAACGTTAGACACCAAACTGGAAT
Found at i:1798251 original size:99 final size:100
Alignment explanation
Indices: 1797975--1798351 Score: 327
Period size: 101 Copynumber: 3.8 Consensus size: 100
1797965 TTTGTTATGA
* *
1797975 TCATGATAACGTAGTAGATAACACTTTTTTTTTAATGTCAACCATTTAAGTTATAAGTATGAAAC
1 TCATGATAACGTAGTAGATAACAC-TTTTTTTT-ATGTAAACGATTTAAGTTATAAGTATGAAAC
* * ** *
1798040 CATTTGTATGACGCAAAAGTAAGACAAAACATATTTC
64 CATTTATATTATACAAAAGTAAGACAAAACATATTGC
* * * *
1798077 CCATGATAGCGTAGTAGATATA-ATCTTTTTTTTATGTCAAATG-TTTAAGTTATAAGTGTGAAA
1 TCATGATAACGTAGTAGATA-ACA-CTTTTTTTTATGT-AAACGATTTAAGTTATAAGTATGAAA
*
1798140 CCGTTTATATTATACAAAAGTAAGACAAAACA-AGTTGC
63 CCATTTATATTATACAAAAGTAAGACAAAACATA-TTGC
* * * * **
1798178 TCATGATAACGTATTAGGTAACAC-TTTTTTTATGTTAACGATTTAAGTTATATGTAT-AAAATA
1 TCATGATAACGTAGTAGATAACACTTTTTTTTATGTAAACGATTTAAGTTATAAGTATGAAACCA
* **
1798241 TATTATATTATGA-AAAAGTAAGACAAAATATATTAT
66 T-TTATATTAT-ACAAAAGTAAGACAAAACATATTGC
* * * * * * * * * * **
1798277 TTATGATAATGAACTAGGTAATACATTTTTTTATGCCAACCG-TTTAAGGTATAAGTATGAAATA
1 TCATGATAACGTAGTAGATAACACTTTTTTTTATG-TAAACGATTTAAGTTATAAGTATGAAACC
1798341 ATTTATATTAT
65 ATTTATATTAT
1798352 TAAATATTAA
Statistics
Matches: 225, Mismatches: 38, Indels: 26
0.78 0.13 0.09
Matches are distributed among these distances:
98 7 0.03
99 71 0.32
100 38 0.17
101 78 0.35
102 29 0.13
103 2 0.01
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.38
Consensus pattern (100 bp):
TCATGATAACGTAGTAGATAACACTTTTTTTTATGTAAACGATTTAAGTTATAAGTATGAAACCA
TTTATATTATACAAAAGTAAGACAAAACATATTGC
Found at i:1798490 original size:20 final size:21
Alignment explanation
Indices: 1798465--1798503 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
1798455 AAAAAAATTC
*
1798465 AAAATTATTGATA-TTTGTGG
1 AAAATTATCGATACTTTGTGG
1798485 AAAATTATCGATACTTTGT
1 AAAATTATCGATACTTTGT
1798504 AGACTTCTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.36, C:0.05, G:0.15, T:0.44
Consensus pattern (21 bp):
AAAATTATCGATACTTTGTGG
Found at i:1799053 original size:183 final size:185
Alignment explanation
Indices: 1798643--1799059 Score: 470
Period size: 188 Copynumber: 2.2 Consensus size: 185
1798633 CGAATTTTTA
* ** * * *
1798643 AAAAAAATATTAACATTCTAAATTTCAACCTACTTTCATAATGAACCATGACATGCTTGGGCTCA
1 AAAAAAATATTAACATTCCAAATCGCAACCTACTTTCTTAATGAACAATGACATGCTTGGGCGCA
** *
1798708 ACCATATTTATTATAGATATTCATAACATTTTCGGCTTTTTAACTTTTTTTTTGTTATCGTGTGA
66 ACCATATTTATTATAGATATTCATAACATTTTCGAATTTTTAACTTTTTTTTTG-T-TCGTGTAA
* * ** * * *
1798773 AAATTTAAGGTTGTATCAACTTAAACTCTAGTGCATTTTAGGCGCAACTCATTTTGTT
129 AAATCTAAGGCTCAATCAACTTAAACTCTAGTACATTTTAGGCGAAACCCA-TTTGTT
* * *
1798831 AAAAAAATATTAACA-TCTCAAATCGCAACCTAATTTCTTAATGAACAATGGCATTCTTGGGCGC
1 AAAAAAATATTAACATTC-CAAATCGCAACCTACTTTCTTAATGAACAATGACATGCTTGGGCGC
* * *
1798895 AACTATATTTATTATATATATTTATAACATTTTC-AATTTTTAACTTTTTTTATTG-T-G-G-AA
65 AACCATATTTATTATAGATATTCATAACATTTTCGAATTTTTAACTTTTTTT-TTGTTCGTGTAA
* *
1798955 AAATCTAAGGCTCAATCAGCTTAAACTCT-GATAATATTTTAGGCGAAACCCATTTGTT
129 AAATCTAAGGCTCAATCAACTTAAACTCTAG-T-ACATTTTAGGCGAAACCCATTTGTT
* * *
1799013 AATAAAAATATTAACATTCCAGATCGCAACTTACTTTCTTAGTGAAC
1 AA-AAAAATATTAACATTCCAAATCGCAACCTACTTTCTTAATGAAC
1799060 TAACTACAGC
Statistics
Matches: 195, Mismatches: 28, Indels: 17
0.81 0.12 0.07
Matches are distributed among these distances:
181 1 0.01
182 34 0.17
183 53 0.27
184 3 0.02
185 1 0.01
187 17 0.09
188 86 0.44
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (185 bp):
AAAAAAATATTAACATTCCAAATCGCAACCTACTTTCTTAATGAACAATGACATGCTTGGGCGCA
ACCATATTTATTATAGATATTCATAACATTTTCGAATTTTTAACTTTTTTTTTGTTCGTGTAAAA
ATCTAAGGCTCAATCAACTTAAACTCTAGTACATTTTAGGCGAAACCCATTTGTT
Found at i:1799264 original size:43 final size:43
Alignment explanation
Indices: 1799215--1799438 Score: 180
Period size: 43 Copynumber: 5.3 Consensus size: 43
1799205 AACAAAAAAT
* *
1799215 GCCGCAATAGGTC-ATTATCTATTA-CGGCGTTTTTTGAACAAAC
1 GCCGCAAAAGGTCGA-TATCTA-TAGCGGCGTTTTTGGAACAAAC
*
1799258 GCCGCAAAAGGTCGATATCTATAGCGGCGTTTTTGGAATAAAC
1 GCCGCAAAAGGTCGATATCTATAGCGGCGTTTTTGGAACAAAC
* * * * * * *
1799301 GCCACAAAAAGT-TATGATATATAGC-GCGTGTCTAGAA-AAAC
1 GCCGCAAAAGGTCGAT-ATCTATAGCGGCGTTTTTGGAACAAAC
* *
1799342 GCC-CAAAAGGTC-AGATCTATAGCGGCGTTTTTGGATGCAAAC
1 GCCGCAAAAGGTCGATATCTATAGCGGCGTTTTTGGA-ACAAAC
* * * *
1799384 GCCGCAAAAGAG--AAGACCTATA-CTGGCGTTTTTAGAACAAAC
1 GCCGCAAAAG-GTCGATATCTATAGC-GGCGTTTTTGGAACAAAC
1799426 GCCGCAAAAGGTC
1 GCCGCAAAAGGTC
1799439 AGACCTATAG
Statistics
Matches: 148, Mismatches: 20, Indels: 26
0.76 0.10 0.13
Matches are distributed among these distances:
39 8 0.05
40 16 0.11
41 8 0.05
42 36 0.24
43 78 0.53
44 2 0.01
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.24
Consensus pattern (43 bp):
GCCGCAAAAGGTCGATATCTATAGCGGCGTTTTTGGAACAAAC
Found at i:1799459 original size:17 final size:17
Alignment explanation
Indices: 1799437--1799471 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
1799427 CCGCAAAAGG
1799437 TCAGACCTATAGCAGTT
1 TCAGACCTATAGCAGTT
*
1799454 TCAGACCTATAGCGGTT
1 TCAGACCTATAGCAGTT
1799471 T
1 T
1799472 TTTGATACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (17 bp):
TCAGACCTATAGCAGTT
Found at i:1803802 original size:41 final size:41
Alignment explanation
Indices: 1803716--1804158 Score: 440
Period size: 41 Copynumber: 10.6 Consensus size: 41
1803706 TTGTAAACTT
* * * * * * *
1803716 GCGGCGTTTGTAAACACAAACGCAACTATAGTACAAATGTATA
1 GCGGCGTTTGTATA-A-AAACGCCACTAAAGTACGAGTCTTTA
* * *
1803759 GCGGCGTTTGAATAAAAACGTCACTAAATTACGAGTCTTTA
1 GCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTTTA
* * * * * *
1803800 GCGGCATTTGTAAACACAAACGCCACTATAGTACAAGTGTATA
1 GCGGCGTTTGTATA-A-AAACGCCACTAAAGTACGAGTCTTTA
* * * *
1803843 ACGGCGTTTGAATAAAAATGCCACTAAAGTACGCGTCTTTA
1 GCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTTTA
*
1803884 GCGGCGTTTGTATAAAAACGCCACTAAAGTATGAGTCTTTA
1 GCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTTTA
* * *
1803925 GCGACGTTTGTATAAAAACGCCACTAAATTATGAGTCTTTA
1 GCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTTTA
* * * *
1803966 GCGGCGTTTGTAAACACAAACGCCACTATAGTAC-ATGTGTATA
1 GCGGCGTTTGTATA-A-AAACGCCACTAAAGTACGA-GTCTTTA
* * * * *
1804009 ACGGCGTTTGTATAAAAATGCCACTAAAGTACAATTCTATA
1 GCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTTTA
* * *
1804050 GCGACGTTTGTATAAAAATGCCACTAAATTACGAGTCTTTA
1 GCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTTTA
* * *
1804091 GCGGCGTTTGTATAAAAACGCCACTAAAGTACTACTCTTTT
1 GCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTTTA
1804132 GCGGCGTTTGT-TGAAAAAACGCCACTA
1 GCGGCGTTTGTAT--AAAAACGCCACTA
1804159 TAGATGAACC
Statistics
Matches: 331, Mismatches: 61, Indels: 17
0.81 0.15 0.04
Matches are distributed among these distances:
40 1 0.00
41 237 0.72
42 20 0.06
43 73 0.22
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (41 bp):
GCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTTTA
Found at i:1803991 original size:125 final size:123
Alignment explanation
Indices: 1803716--1804158 Score: 469
Period size: 125 Copynumber: 3.5 Consensus size: 123
1803706 TTGTAAACTT
* * ** * * *
1803716 GCGGCGTTTGTAAACACAAACGCAACTATAGTACAAATGTATAGCGGCGTTTGAATAAAAACGTC
1 GCGGCGTTTGTAAA-A-AAACGCCACTAAAGTACACGTCTATAGCGGCGTTTGTATAAAAACGCC
* * * * * * * * *
1803781 ACTAAATTACGAGTCTTTAGCGGCATTTGTAAACACAAACGCCACTATAGTACAAGTGTATA
64 ACTAAAGTACGAGTCTTTAGCGACGTTTGTATA-A-AAACGCCACTAAATTACGAGTCTTTA
* * * *
1803843 ACGGCGTTTG-AATAAAAATGCCACTAAAGTACGCGTCTTTAGCGGCGTTTGTATAAAAACGCCA
1 GCGGCGTTTGTAA-AAAAACGCCACTAAAGTACACGTCTATAGCGGCGTTTGTATAAAAACGCCA
* *
1803907 CTAAAGTATGAGTCTTTAGCGACGTTTGTATAAAAACGCCACTAAATTATGAGTCTTTA
65 CTAAAGTACGAGTCTTTAGCGACGTTTGTATAAAAACGCCACTAAATTACGAGTCTTTA
* * * * *
1803966 GCGGCGTTTGTAAACACAAACGCCACTATAGTACATGTGTATAACGGCGTTTGTATAAAAATGCC
1 GCGGCGTTTGTAAA-A-AAACGCCACTAAAGTACACGTCTATAGCGGCGTTTGTATAAAAACGCC
* * * *
1804031 ACTAAAGTACAATTCTATAGCGACGTTTGTATAAAAATGCCACTAAATTACGAGTCTTTA
64 ACTAAAGTACGAGTCTTTAGCGACGTTTGTATAAAAACGCCACTAAATTACGAGTCTTTA
* * *
1804091 GCGGCGTTTGTATAAAAACGCCACTAAAGTACTAC-TCTTTTGCGGCGTTTGT-TGAAAAAACGC
1 GCGGCGTTTGTAAAAAAACGCCACTAAAGTAC-ACGTCTATAGCGGCGTTTGTAT--AAAAACGC
1804154 CACTA
63 CACTA
1804159 TAGATGAACC
Statistics
Matches: 264, Mismatches: 45, Indels: 17
0.81 0.14 0.05
Matches are distributed among these distances:
122 1 0.00
123 59 0.22
124 18 0.07
125 173 0.66
126 3 0.01
127 10 0.04
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (123 bp):
GCGGCGTTTGTAAAAAAACGCCACTAAAGTACACGTCTATAGCGGCGTTTGTATAAAAACGCCAC
TAAAGTACGAGTCTTTAGCGACGTTTGTATAAAAACGCCACTAAATTACGAGTCTTTA
Found at i:1804060 original size:166 final size:166
Alignment explanation
Indices: 1803757--1804161 Score: 600
Period size: 166 Copynumber: 2.4 Consensus size: 166
1803747 TACAAATGTA
* * * *
1803757 TAGCGGCGTTTGAATAAAAACGTCACTAAATTACGAGTCTTTAGCGGCATTTGTAAACACAAACG
1 TAGCGGCGTTTGTATAAAAACGCCACTAAATTATGAGTCTTTAGCGGCGTTTGTAAACACAAACG
** *
1803822 CCACTATAGTACAAGTGTATAACGGCGTTTGAATAAAAATGCCACTAAAGTACGCGTCTTTAGCG
66 CCACTATAGTACAAGTGTATAACGGCGTTTGAATAAAAATGCCACTAAAGTACAAGTCTATAGCG
* *
1803887 GCGTTTGTATAAAAACGCCACTAAAGTATGAGTCTT
131 ACGTTTGTATAAAAACGCCACTAAAGTACGAGTCTT
*
1803923 TAGCGACGTTTGTATAAAAACGCCACTAAATTATGAGTCTTTAGCGGCGTTTGTAAACACAAACG
1 TAGCGGCGTTTGTATAAAAACGCCACTAAATTATGAGTCTTTAGCGGCGTTTGTAAACACAAACG
* * *
1803988 CCACTATAGTACATGTGTATAACGGCGTTTGTATAAAAATGCCACTAAAGTACAATTCTATAGCG
66 CCACTATAGTACAAGTGTATAACGGCGTTTGAATAAAAATGCCACTAAAGTACAAGTCTATAGCG
* *
1804053 ACGTTTGTATAAAAATGCCACTAAATTACGAGTCTT
131 ACGTTTGTATAAAAACGCCACTAAAGTACGAGTCTT
* * * *
1804089 TAGCGGCGTTTGTATAAAAACGCCACTAAAGTACT-ACTCTTTTGCGGCGTTTGTTGAA-A-AAA
1 TAGCGGCGTTTGTATAAAAACGCCACTAAATTA-TGAGTCTTTAGCGGCGTTTG-TAAACACAAA
1804151 CGCCACTATAG
64 CGCCACTATAG
1804162 ATGAACCTAT
Statistics
Matches: 217, Mismatches: 20, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
165 14 0.06
166 199 0.92
167 4 0.02
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (166 bp):
TAGCGGCGTTTGTATAAAAACGCCACTAAATTATGAGTCTTTAGCGGCGTTTGTAAACACAAACG
CCACTATAGTACAAGTGTATAACGGCGTTTGAATAAAAATGCCACTAAAGTACAAGTCTATAGCG
ACGTTTGTATAAAAACGCCACTAAAGTACGAGTCTT
Found at i:1810532 original size:17 final size:17
Alignment explanation
Indices: 1810510--1810548 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
1810500 GTCATTTTAG
1810510 CATCTTATTTTCTGAAA
1 CATCTTATTTTCTGAAA
*
1810527 CATCTTATTTTCTGGAA
1 CATCTTATTTTCTGAAA
1810544 CATCT
1 CATCT
1810549 GTAATAACTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.26, C:0.21, G:0.08, T:0.46
Consensus pattern (17 bp):
CATCTTATTTTCTGAAA
Found at i:1821398 original size:21 final size:21
Alignment explanation
Indices: 1821374--1821418 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
1821364 GTAATCGATT
*
1821374 AAAATGTTTTTAAAG-TATTTA
1 AAAATATTTTTAAAGCT-TTTA
1821395 AAAATATTTTTAAAGCTTTTA
1 AAAATATTTTTAAAGCTTTTA
1821416 AAA
1 AAA
1821419 CATGAAAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 21 0.95
22 1 0.05
ACGTcount: A:0.47, C:0.02, G:0.07, T:0.44
Consensus pattern (21 bp):
AAAATATTTTTAAAGCTTTTA
Found at i:1824970 original size:21 final size:20
Alignment explanation
Indices: 1824942--1824982 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
1824932 GGGATTTCAA
1824942 AAGGGAGTATCGATACTGCC
1 AAGGGAGTATCGATACTGCC
*
1824962 AAGGTGAGTATCGATATTGCC
1 AAGG-GAGTATCGATACTGCC
1824983 CCTGCAGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.24
Consensus pattern (20 bp):
AAGGGAGTATCGATACTGCC
Found at i:1826217 original size:21 final size:21
Alignment explanation
Indices: 1826159--1826230 Score: 63
Period size: 22 Copynumber: 3.3 Consensus size: 21
1826149 TATATGCCAA
* *
1826159 CAGTGCTAAGACACTTTATTAT
1 CAGTGCTGAG-CACTTTAGTAT
* ** *
1826181 CAATGCAAACGCACTTTCGTAT
1 CAGTGCTGA-GCACTTTAGTAT
*
1826203 TAGTGCTGAGCACTTTAGTAT
1 CAGTGCTGAGCACTTTAGTAT
1826224 CAGTGCT
1 CAGTGCT
1826231 AAAGCGTTTC
Statistics
Matches: 39, Mismatches: 10, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
21 17 0.44
22 21 0.54
23 1 0.03
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (21 bp):
CAGTGCTGAGCACTTTAGTAT
Found at i:1832169 original size:40 final size:40
Alignment explanation
Indices: 1832114--1832202 Score: 160
Period size: 40 Copynumber: 2.2 Consensus size: 40
1832104 TGTCTTCCGT
* *
1832114 TGGCAGGTCAGTAGCTGTTGCAATTTGTCGAGCACCATCA
1 TGGCAGGACAGTAGCTGGTGCAATTTGTCGAGCACCATCA
1832154 TGGCAGGACAGTAGCTGGTGCAATTTGTCGAGCACCATCA
1 TGGCAGGACAGTAGCTGGTGCAATTTGTCGAGCACCATCA
1832194 TGGCAGGAC
1 TGGCAGGAC
1832203 TTCCGGCGTC
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.24
Consensus pattern (40 bp):
TGGCAGGACAGTAGCTGGTGCAATTTGTCGAGCACCATCA
Found at i:1839743 original size:18 final size:18
Alignment explanation
Indices: 1839720--1839756 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
1839710 AACACTAGAT
1839720 GCAAAAACAATCTCAACC
1 GCAAAAACAATCTCAACC
1839738 GCAAAAACAATCTCAACC
1 GCAAAAACAATCTCAACC
1839756 G
1 G
1839757 AAACTCTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.49, C:0.32, G:0.08, T:0.11
Consensus pattern (18 bp):
GCAAAAACAATCTCAACC
Found at i:1847338 original size:109 final size:111
Alignment explanation
Indices: 1847145--1847365 Score: 419
Period size: 109 Copynumber: 2.0 Consensus size: 111
1847135 TCAAGGGAAG
1847145 ATATGATGTTGATCAAGAATTCAAGGGGGTAGTTCAGCCTTTAATTTTGCCAATATTTGGTTTGT
1 ATATGATG-TGATCAAGAATTCAAGGGGGTAGTTCAGCCTTTAATTTTGCCAATATTTGGTTTGT
1847210 GTGATTTGTTTTTTTTTCACCCATGAGTACATTTT-AACACCTGTTT
65 GTGATTTGTTTTTTTTTCACCCATGAGTACATTTTAAACACCTGTTT
1847256 ATATGATG-GATCAAGAATTCAAGGGGGTAGTTCAGCCTTTAATTTTGCCAATATTTGGTTTGTG
1 ATATGATGTGATCAAGAATTCAAGGGGGTAGTTCAGCCTTTAATTTTGCCAATATTTGGTTTGTG
1847320 TGATTTGTTTTTTTTTCACCCATGAGTACATTTTAAACACCTGTTT
66 TGATTTGTTTTTTTTTCACCCATGAGTACATTTTAAACACCTGTTT
1847366 CTTCGATTTC
Statistics
Matches: 109, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
109 90 0.83
110 11 0.10
111 8 0.07
ACGTcount: A:0.24, C:0.14, G:0.19, T:0.43
Consensus pattern (111 bp):
ATATGATGTGATCAAGAATTCAAGGGGGTAGTTCAGCCTTTAATTTTGCCAATATTTGGTTTGTG
TGATTTGTTTTTTTTTCACCCATGAGTACATTTTAAACACCTGTTT
Found at i:1848609 original size:166 final size:167
Alignment explanation
Indices: 1848305--1848638 Score: 643
Period size: 167 Copynumber: 2.0 Consensus size: 167
1848295 CTAAGATGGT
1848305 AAATGAATCGAATTTGGACAAATAAATCCTTTATCATGCTTGTTTATTTATTTCATTGCTAAAGT
1 AAATGAATCGAATTTGGACAAATAAATCCTTTATCATGCTTGTTTATTTATTTCATTGCTAAAGT
1848370 TATGGGGGGAATCGGCTTTGCTATGGGGTAGAGTTAAATTTAAAATTGAATTAATTTTCTTTTAA
66 TATGGGGGGAATCGGCTTTGCTATGGGGTAGAGTTAAATTTAAAATTGAATTAATTTTCTTTTAA
1848435 GAAAAAAAAATTAGGTTGTTTCAAGTTGAGTGTAAAA
131 GAAAAAAAAATTAGGTTGTTTCAAGTTGAGTGTAAAA
1848472 AAATGAATCGAATTTGGAC-AATAAATCCTTTATCATGCTTGTTTATTTATTTCATTGCTAAAGT
1 AAATGAATCGAATTTGGACAAATAAATCCTTTATCATGCTTGTTTATTTATTTCATTGCTAAAGT
*
1848536 TATGGGGGGAATCGGCTTTGCTATGTTGGTAGAGTTAAATTTAAAATTGAATTAATTTTCTTTTA
66 TATGGGGGGAATCGGCTTTGCTATG-GGGTAGAGTTAAATTTAAAATTGAATTAATTTTCTTTTA
1848601 AGAAAAAAAAATTAGGTTGTTTCAAGTTGAGTGTAAAA
130 AGAAAAAAAAATTAGGTTGTTTCAAGTTGAGTGTAAAA
1848639 TTGGAGAGAA
Statistics
Matches: 165, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
166 70 0.42
167 95 0.58
ACGTcount: A:0.34, C:0.08, G:0.19, T:0.39
Consensus pattern (167 bp):
AAATGAATCGAATTTGGACAAATAAATCCTTTATCATGCTTGTTTATTTATTTCATTGCTAAAGT
TATGGGGGGAATCGGCTTTGCTATGGGGTAGAGTTAAATTTAAAATTGAATTAATTTTCTTTTAA
GAAAAAAAAATTAGGTTGTTTCAAGTTGAGTGTAAAA
Found at i:1849871 original size:18 final size:18
Alignment explanation
Indices: 1849850--1849897 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
1849840 CAATTGTCCT
*
1849850 TATTATATATTTGTATAA
1 TATTATATATTTGTAAAA
* *
1849868 TATTACA-AATTGTAAAA
1 TATTATATATTTGTAAAA
1849885 TATTTATATATTT
1 TA-TTATATATTT
1849898 TCTTTAAAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
17 10 0.43
18 10 0.43
19 3 0.13
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (18 bp):
TATTATATATTTGTAAAA
Found at i:1851946 original size:31 final size:32
Alignment explanation
Indices: 1851911--1851974 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
1851901 GCTCAAAGGA
1851911 CCCTATTCA-CCATCCCCCTAAGGATGATCAC
1 CCCTATTCACCCATCCCCCTAAGGATGATCAC
1851942 CCCTATTCACCCATCCCCCTAAGGATGATCAC
1 CCCTATTCACCCATCCCCCTAAGGATGATCAC
1851974 C
1 C
1851975 ATCAATCAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 9 0.28
32 23 0.72
ACGTcount: A:0.25, C:0.44, G:0.09, T:0.22
Consensus pattern (32 bp):
CCCTATTCACCCATCCCCCTAAGGATGATCAC
Found at i:1854145 original size:63 final size:63
Alignment explanation
Indices: 1854067--1854271 Score: 394
Period size: 63 Copynumber: 3.3 Consensus size: 63
1854057 AGTTTTTTGG
1854067 GGGTTTAGAAACCCAATGAGACAGTTTCAAAAAATCACTTATAGTTTCGAAACCCCTTTAGCA
1 GGGTTTAGAAACCCAATGAGACAGTTTCAAAAAATCACTTATAGTTTCGAAACCCCTTTAGCA
1854130 GGGTTTAGAAACCCAATGAGACAGTTTCAAAAAATCACTTATAGTTTCGAAACCCCTTTAGCA
1 GGGTTTAGAAACCCAATGAGACAGTTTCAAAAAATCACTTATAGTTTCGAAACCCCTTTAGCA
1854193 GGGTTTAGAAACCCAATGAGACAGTTTCAAAAAATCACTTATAGTTTCGAAACCCCTTTAGCA
1 GGGTTTAGAAACCCAATGAGACAGTTTCAAAAAATCACTTATAGTTTCGAAACCCCTTTAGCA
*
1854256 -GGTTTATAAACCCAAT
1 GGGTTTAGAAACCCAAT
1854272 CAATTATACG
Statistics
Matches: 141, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
62 15 0.11
63 126 0.89
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (63 bp):
GGGTTTAGAAACCCAATGAGACAGTTTCAAAAAATCACTTATAGTTTCGAAACCCCTTTAGCA
Found at i:1855796 original size:13 final size:14
Alignment explanation
Indices: 1855769--1855797 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1855759 CCAAACTTAA
1855769 AAATAAAAGTCTAT
1 AAATAAAAGTCTAT
1855783 AAATAAAA-TCTAT
1 AAATAAAAGTCTAT
1855796 AA
1 AA
1855798 TTATCGATAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.62, C:0.07, G:0.03, T:0.28
Consensus pattern (14 bp):
AAATAAAAGTCTAT
Found at i:1860738 original size:72 final size:72
Alignment explanation
Indices: 1860616--1860759 Score: 256
Period size: 72 Copynumber: 2.0 Consensus size: 72
1860606 TACTCCCCCT
1860616 TACTTTAACACTTCTCCCATTTATCATTTTAAAAACACACTTCTCCCCCTTTTTGTTAAATTAAA
1 TACTTTAACACTTCTCCCATTTATCATTTTAAAAACACACTTCTCCCCCTTTTTGTT-AATTAAA
1860681 AA-ATTCA
65 AAGATTCA
1860688 TACTTATAACACTTCTCCCATTTATCATTTT-AAAACACACTTCTCCCCCTTTTTGTTAATTAAA
1 TACTT-TAACACTTCTCCCATTTATCATTTTAAAAACACACTTCTCCCCCTTTTTGTTAATTAAA
1860752 AAGATTCA
65 AAGATTCA
1860760 AATAAACTGA
Statistics
Matches: 70, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
71 9 0.13
72 36 0.51
73 25 0.36
ACGTcount: A:0.33, C:0.25, G:0.02, T:0.40
Consensus pattern (72 bp):
TACTTTAACACTTCTCCCATTTATCATTTTAAAAACACACTTCTCCCCCTTTTTGTTAATTAAAA
AGATTCA
Found at i:1874223 original size:127 final size:127
Alignment explanation
Indices: 1873997--1874631 Score: 1063
Period size: 127 Copynumber: 5.0 Consensus size: 127
1873987 GTACTATTCA
* * *
1873997 CGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTTAGAGAATATGTTATCATTGCCT
1 CGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTACCC
* **
1874062 TATTACGTCACTTATGTCCCCCATGAACTATTCATGTCAATACCTATTATTCCTTAGGGGAC
66 TATTATGTCACTTATGTCCCCCGGGAACTATTCATGTCAATACCTATTATTCCTTAGGGGAC
** * * *
1874124 CGTGAAGGCGCGTTTTCGGGGGTGCGCCTTCCATTATTTTGTCAGATAATATGTTATCATTGCCC
1 CGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTACCC
*
1874189 TATTATGTCACTTATGTCCCCCGGGAACTATTCATGTCAATACCTATTATTTCTTAGGGGAC
66 TATTATGTCACTTATGTCCCCCGGGAACTATTCATGTCAATACCTATTATTCCTTAGGGGAC
* * * *
1874251 CGTGAGGGCACGTTCCCGGGGGCACCCCTTCCATTATTTTGTCAGAGAATATGTTATCATTACCC
1 CGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTACCC
* *
1874316 TATGATGTCACTTATGTCCCCCGGGAACTATACATGTCAATACCTATTATTCCTTAGGGGAC
66 TATTATGTCACTTATGTCCCCCGGGAACTATTCATGTCAATACCTATTATTCCTTAGGGGAC
*
1874378 CGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCTATTATTTTGTCAGAGAATATGTTATCATTACCC
1 CGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTACCC
**
1874443 TATTATGTCACTTATGTCCCCCAAGAACTATTCATGTCAATACCTATTATTCCTTAGGGGAC
66 TATTATGTCACTTATGTCCCCCGGGAACTATTCATGTCAATACCTATTATTCCTTAGGGGAC
* *
1874505 CGTGAAGGCCCGTTCCCGGGGGTGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTACCC
1 CGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTACCC
1874570 TATTATGTCACTTATGTCCCCCGGGAACTATTCATGTCAATACCTATTATTCCTTAGGGGAC
66 TATTATGTCACTTATGTCCCCCGGGAACTATTCATGTCAATACCTATTATTCCTTAGGGGAC
1874632 TTTAAAACGC
Statistics
Matches: 472, Mismatches: 36, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
127 472 1.00
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.33
Consensus pattern (127 bp):
CGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTACCC
TATTATGTCACTTATGTCCCCCGGGAACTATTCATGTCAATACCTATTATTCCTTAGGGGAC
Found at i:1875099 original size:34 final size:34
Alignment explanation
Indices: 1875061--1875161 Score: 157
Period size: 34 Copynumber: 3.0 Consensus size: 34
1875051 GAATTTAATG
*
1875061 TTAAATTTCGAATACTATAATTTATATTTTAAAT
1 TTAAATTTCGAATACTATAATTTGTATTTTAAAT
* * * *
1875095 TTAAATTTCGGATAATATTATTTGTATTTTAATT
1 TTAAATTTCGAATACTATAATTTGTATTTTAAAT
1875129 TTAAATTTCGAATACTATAATTTGTATTTTAAA
1 TTAAATTTCGAATACTATAATTTGTATTTTAAA
1875162 AACATTTATT
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 58 1.00
ACGTcount: A:0.38, C:0.05, G:0.06, T:0.51
Consensus pattern (34 bp):
TTAAATTTCGAATACTATAATTTGTATTTTAAAT
Found at i:1875724 original size:21 final size:21
Alignment explanation
Indices: 1875673--1875745 Score: 94
Period size: 21 Copynumber: 3.5 Consensus size: 21
1875663 TATGGTATAA
*
1875673 AACCCTGCGGGCTAGGCATGT
1 AACCCTGCGGGCTAGGAATGT
*
1875694 AA-CATGGCGGGCTAGGAATGT
1 AACCCT-GCGGGCTAGGAATGT
*
1875715 AACCCTGCGGGTTAGGAATGT
1 AACCCTGCGGGCTAGGAATGT
*
1875736 AACTCTGCGG
1 AACCCTGCGG
1875746 AGATGACATA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
20 2 0.04
21 41 0.91
22 2 0.04
ACGTcount: A:0.23, C:0.22, G:0.34, T:0.21
Consensus pattern (21 bp):
AACCCTGCGGGCTAGGAATGT
Found at i:1877419 original size:25 final size:23
Alignment explanation
Indices: 1877373--1877430 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 23
1877363 ATAAATTCAT
1877373 AATAAAT-TTAAATTAAACATAA
1 AATAAATATTAAATTAAACATAA
**
1877395 CAATAAATATTAACATTAATTATAA
1 -AATAAATATTAA-ATTAAACATAA
*
1877420 AAAAAATATTA
1 AATAAATATTA
1877431 CCATATCGCT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
23 7 0.23
24 14 0.47
25 9 0.30
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (23 bp):
AATAAATATTAAATTAAACATAA
Found at i:1877592 original size:35 final size:34
Alignment explanation
Indices: 1877553--1877638 Score: 95
Period size: 32 Copynumber: 2.6 Consensus size: 34
1877543 AAATTTAAAT
*
1877553 AAATAATAATTATATAAATATTATTTTAATAAAAA
1 AAATAATAATTATATAAA-ATTATATTAATAAAAA
* *
1877588 AAATAAT-ATT-TATATAATTATATTAATATAAA
1 AAATAATAATTATATAAAATTATATTAATAAAAA
* * *
1877620 ATATAATAACTATTTAAAA
1 AAATAATAATTATATAAAA
1877639 AAAATAACTG
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
32 20 0.48
33 7 0.17
34 8 0.19
35 7 0.17
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (34 bp):
AAATAATAATTATATAAAATTATATTAATAAAAA
Found at i:1877594 original size:32 final size:32
Alignment explanation
Indices: 1877525--1877626 Score: 88
Period size: 32 Copynumber: 3.3 Consensus size: 32
1877515 TAATTAGCAC
* *
1877525 AAAAAATAATTA-ATTAATA--AATTTAA-AT
1 AAAAAATAATTATATAAATATTATTTTAATAT
* *
1877553 AAATAATAATTATATAAATATTATTTTAATAA
1 AAAAAATAATTATATAAATATTATTTTAATAT
* * *
1877585 AAAAAATAA-TATTTATATAATTATATTAATAT
1 AAAAAATAATTATATAAAT-ATTATTTTAATAT
*
1877617 AAAATATAAT
1 AAAAAATAAT
1877627 AACTATTTAA
Statistics
Matches: 58, Mismatches: 10, Indels: 7
0.77 0.13 0.09
Matches are distributed among these distances:
28 11 0.19
29 6 0.10
31 13 0.22
32 28 0.48
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (32 bp):
AAAAAATAATTATATAAATATTATTTTAATAT
Found at i:1879008 original size:439 final size:440
Alignment explanation
Indices: 1878157--1879035 Score: 1715
Period size: 439 Copynumber: 2.0 Consensus size: 440
1878147 GATTCATTCT
1878157 AAAAGTTGTACTTAAGATACACGTAAACACAGAAGTAACCCATAACCCAATATACTTGTATAAAT
1 AAAAGTTGTACTTAAGATACACGTAAACACAGAAGTAACCCATAACCCAATATACTTGTATAAAT
1878222 AATACACATACATGGATAGTTAATCATAATAGGAATCCTATTCCTAACAACATAAAGATCTTAAC
66 AATACACATACATGGATAGTTAATCATAATAGGAATCCTATTCCTAACAACATAAAGATCTTAAC
1878287 AATCCAGTGGCCAGGATTCTCCAGAGGCCGTGGCGGGAGGATTTAAAATAATCTGACCGCTGGTC
131 AATCCAGTGGCCAGGATTCTCCAGAGGCCGTGGCGGGAGGATTTAAAATAATCTGACCGCTGGTC
1878352 CGATTGAAAGCAATTGAATTGGACATGTCACGGCCCGTAACAGCAGCTTCAGAAAACCCCAACAC
196 CGATTGAAAGCAATTGAATTGGACATGTCACGGCCCGTAACAGCAGCTTCAGAAAACCCCAACAC
*
1878417 GGTATAATCCATCTCAAACAAGGGATTTTGACATGGTGGGGTGGGATGAATCTTGTCCATCCACT
261 AGTATAATCCATCTCAAACAAGGGATTTTGACATGGTGGGGTGGGATGAATCTTGTCCATCCACT
1878482 TCATGGTTGTGTTGGAATCTAAATGGGAAAAGTTAGCCTCAGTCTTGCACAGTCTGGGAATAGTA
326 TCATGGTTGTGTTGGAATCTAAATGGGAAAAGTTAGCCTCAGTCTTGCACAGTCTGGGAATAGTA
*
1878547 GCTTTTTCCTTCGAGGTGCAACCTTGATGTGAGAGCAGGGACTTCAAGAG
391 GCTTGTTCCTTCGAGGTGCAACCTTGATGTGAGAGCAGGGACTTCAAGAG
1878597 AAAAGTTGTACTTAAGATACACGTAAACACAG-AGTAACCCATAACCCAATATACTTGTATAAAT
1 AAAAGTTGTACTTAAGATACACGTAAACACAGAAGTAACCCATAACCCAATATACTTGTATAAAT
1878661 AATACACATACATGGATAGTTAATCATAATAGGAATCCTATTCCTAACAACATAAAGATCTTAAC
66 AATACACATACATGGATAGTTAATCATAATAGGAATCCTATTCCTAACAACATAAAGATCTTAAC
1878726 AATCCAGTGGCCAGGATTCTCCAGAGGCCGTGGCGGGAGGATTTAAAATAATCTGACCGCTGGTC
131 AATCCAGTGGCCAGGATTCTCCAGAGGCCGTGGCGGGAGGATTTAAAATAATCTGACCGCTGGTC
*
1878791 CGATTGAAAGCAATTGAATTGGACATGTCACGGCCCGTAACAGCAGCTTCAGAAAACCCCGACAC
196 CGATTGAAAGCAATTGAATTGGACATGTCACGGCCCGTAACAGCAGCTTCAGAAAACCCCAACAC
1878856 AGTATAATCCATCTCAAACAAGGGATTTTGACATGGTGGGGTGGGATGAATCTTGTCCATCCACT
261 AGTATAATCCATCTCAAACAAGGGATTTTGACATGGTGGGGTGGGATGAATCTTGTCCATCCACT
1878921 TCATGGTTGTGTTGGAATCTAAATGGGAAAAGTTAGCCTCAGTCTTGCACAGTCTGGGAATAGTA
326 TCATGGTTGTGTTGGAATCTAAATGGGAAAAGTTAGCCTCAGTCTTGCACAGTCTGGGAATAGTA
*
1878986 GCTTGTTCCTTCGAGGTGCAACCTTGATGTGAGAGCAGGGACTTGAAGAG
391 GCTTGTTCCTTCGAGGTGCAACCTTGATGTGAGAGCAGGGACTTCAAGAG
1879036 CATCGACGCT
Statistics
Matches: 435, Mismatches: 4, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
439 403 0.93
440 32 0.07
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (440 bp):
AAAAGTTGTACTTAAGATACACGTAAACACAGAAGTAACCCATAACCCAATATACTTGTATAAAT
AATACACATACATGGATAGTTAATCATAATAGGAATCCTATTCCTAACAACATAAAGATCTTAAC
AATCCAGTGGCCAGGATTCTCCAGAGGCCGTGGCGGGAGGATTTAAAATAATCTGACCGCTGGTC
CGATTGAAAGCAATTGAATTGGACATGTCACGGCCCGTAACAGCAGCTTCAGAAAACCCCAACAC
AGTATAATCCATCTCAAACAAGGGATTTTGACATGGTGGGGTGGGATGAATCTTGTCCATCCACT
TCATGGTTGTGTTGGAATCTAAATGGGAAAAGTTAGCCTCAGTCTTGCACAGTCTGGGAATAGTA
GCTTGTTCCTTCGAGGTGCAACCTTGATGTGAGAGCAGGGACTTCAAGAG
Found at i:1882056 original size:16 final size:16
Alignment explanation
Indices: 1882032--1882097 Score: 80
Period size: 16 Copynumber: 4.1 Consensus size: 16
1882022 ATGGGACGTA
1882032 GGAATGCATGGGGGAG
1 GGAATGCATGGGGGAG
* * *
1882048 GGGATGCATGGGACGTG
1 GGAATGCATGGG-GGAG
*
1882065 GGAATGCAT-GGGGTG
1 GGAATGCATGGGGGAG
1882080 GGAATGCATGGGGGAG
1 GGAATGCATGGGGGAG
1882096 GG
1 GG
1882098 GATGGTGCAT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
15 12 0.29
16 20 0.48
17 10 0.24
ACGTcount: A:0.21, C:0.08, G:0.56, T:0.15
Consensus pattern (16 bp):
GGAATGCATGGGGGAG
Found at i:1882059 original size:33 final size:32
Alignment explanation
Indices: 1882021--1882091 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 32
1882011 ATGCAATCAA
*
1882021 CATGGGACGTAGGAATGCATGGGGGAGGGGATG
1 CATGGGACGTAGGAATGCAT-GGGGAGGGAATG
* *
1882054 CATGGGACGTGGGAATGCATGGGGTGGGAATG
1 CATGGGACGTAGGAATGCATGGGGAGGGAATG
1882086 CATGGG
1 CATGGG
1882092 GGAGGGGATG
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
32 16 0.46
33 19 0.54
ACGTcount: A:0.23, C:0.10, G:0.51, T:0.17
Consensus pattern (32 bp):
CATGGGACGTAGGAATGCATGGGGAGGGAATG
Found at i:1882082 original size:15 final size:15
Alignment explanation
Indices: 1882032--1882092 Score: 77
Period size: 15 Copynumber: 3.9 Consensus size: 15
1882022 ATGGGACGTA
*
1882032 GGAATGCATGGGGGAG
1 GGAATGCAT-GGGGTG
*
1882048 GGGATGCATGGGACGTG
1 GGAATGCATGGG--GTG
1882065 GGAATGCATGGGGTG
1 GGAATGCATGGGGTG
1882080 GGAATGCATGGGG
1 GGAATGCATGGGG
1882093 GAGGGGATGG
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
15 19 0.47
16 8 0.20
17 13 0.32
ACGTcount: A:0.21, C:0.08, G:0.54, T:0.16
Consensus pattern (15 bp):
GGAATGCATGGGGTG
Found at i:1882146 original size:45 final size:45
Alignment explanation
Indices: 1882077--1882169 Score: 177
Period size: 45 Copynumber: 2.1 Consensus size: 45
1882067 AATGCATGGG
*
1882077 GTGGGAATGCATGGGGGAGGGGATGGTGCATTGGACGTGGGAACT
1 GTGGGAATGCATGGGGGAGAGGATGGTGCATTGGACGTGGGAACT
1882122 GTGGGAATGCATGGGGGAGAGGATGGTGCATTGGACGTGGGAACT
1 GTGGGAATGCATGGGGGAGAGGATGGTGCATTGGACGTGGGAACT
1882167 GTG
1 GTG
1882170 CATGGCCATG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.20, C:0.09, G:0.51, T:0.20
Consensus pattern (45 bp):
GTGGGAATGCATGGGGGAGAGGATGGTGCATTGGACGTGGGAACT
Found at i:1882631 original size:21 final size:21
Alignment explanation
Indices: 1882602--1882645 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
1882592 AATCTAGTTA
1882602 ATTAGTTTGTTAGTATAAATT
1 ATTAGTTTGTTAGTATAAATT
* * *
1882623 ATTATTTTGTTAGTTTAAGTT
1 ATTAGTTTGTTAGTATAAATT
1882644 AT
1 AT
1882646 ATTATATTAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.14, T:0.57
Consensus pattern (21 bp):
ATTAGTTTGTTAGTATAAATT
Found at i:1882646 original size:28 final size:28
Alignment explanation
Indices: 1882615--1882680 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 28
1882605 AGTTTGTTAG
* *
1882615 TATAAATTATTATTTTGTTAGTTTAAGT
1 TATAAATTATTAGTTTATTAGTTTAAGT
*
1882643 TAT-ATTATATTAGTTTATTAGTTTAAGT
1 TATAAAT-TATTAGTTTATTAGTTTAAGT
*
1882671 TATATATTAT
1 TATAAATTAT
1882681 ATTATATAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
27 2 0.06
28 28 0.90
29 1 0.03
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.58
Consensus pattern (28 bp):
TATAAATTATTAGTTTATTAGTTTAAGT
Found at i:1883231 original size:20 final size:21
Alignment explanation
Indices: 1883187--1883231 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
1883177 AAATATTGTG
**
1883187 TTTAAAAATATTTAGTGTTGT
1 TTTAAAAATATTTAGTGTTAA
*
1883208 TTTAAAAATATTTTGT-TTAA
1 TTTAAAAATATTTAGTGTTAA
1883228 TTTA
1 TTTA
1883232 CATTGTATGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.56
Consensus pattern (21 bp):
TTTAAAAATATTTAGTGTTAA
Found at i:1883520 original size:26 final size:25
Alignment explanation
Indices: 1883491--1883549 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
1883481 AAATCATATT
*
1883491 ATTATTAAATCATTAAATATCAAATC
1 ATTATTAAAT-AGTAAATATCAAATC
*
1883517 ATTAGATT-AATAGTAATTATCAAATC
1 ATT--ATTAAATAGTAAATATCAAATC
1883543 ATTATTA
1 ATTATTA
1883550 GGTTTATTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
24 3 0.11
26 19 0.68
27 3 0.11
28 3 0.11
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.41
Consensus pattern (25 bp):
ATTATTAAATAGTAAATATCAAATC
Found at i:1886457 original size:26 final size:26
Alignment explanation
Indices: 1886428--1886729 Score: 248
Period size: 26 Copynumber: 12.2 Consensus size: 26
1886418 TTTGATGATT
1886428 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
1886454 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
*
1886480 TAATAATGATTT-AGTAATAATCATTA
1 TAGTAATGATTTGA-TAATAATCATTA
** *
1886506 TAAAAATGA-TT--TAATAATGATT-
1 TAGTAATGATTTGATAATAATCATTA
* * * *
1886528 TA--AAT-TTTTAATAATTTGATGATT-
1 TAGTAATGATTTGATAA--TAATCATTA
1886552 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
1886578 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
*
1886604 TAATAATGATTT-AGTAATAATCATTA
1 TAGTAATGATTTGA-TAATAATCATTA
* *
1886630 TA-AAATGA-TT--TAATAATGATT-
1 TAGTAATGATTTGATAATAATCATTA
* * * *
1886651 TA--AAT-ATTTAATGATTTGATGATT-
1 TAGTAATGATTTGAT-A-ATAATCATTA
1886675 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
* * *
1886701 TAATAATGATTTTATAATAATTATT-
1 TAGTAATGATTTGATAATAATCATTA
1886726 TAGT
1 TAGT
1886730 TATTATTTAG
Statistics
Matches: 234, Mismatches: 22, Indels: 41
0.79 0.07 0.14
Matches are distributed among these distances:
19 1 0.00
20 10 0.04
21 2 0.01
22 16 0.07
23 11 0.05
24 20 0.09
25 24 0.10
26 137 0.59
27 13 0.06
ACGTcount: A:0.43, C:0.02, G:0.10, T:0.45
Consensus pattern (26 bp):
TAGTAATGATTTGATAATAATCATTA
Found at i:1886548 original size:124 final size:124
Alignment explanation
Indices: 1886373--1886765 Score: 668
Period size: 124 Copynumber: 3.2 Consensus size: 124
1886363 ATGTATTTAT
1886373 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
1 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
1886438 TTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAA
66 TTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAA
* *
1886497 TAATCATTATAAAAATGATTTAATAATGATTTAAATTTTTAATAATTTGATGATTTAGTAATGAT
1 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
1886562 TTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAA
66 TTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAA
1886621 TAATCATTAT-AAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
1 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
* * * * * *
1886685 TTGATAATAATCATTATAATAATGATTTTATAATAATTATT-TAGTTATTATTTAGTAA
66 TTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAA
* *
1886743 TTAT--TTATAATAATGATTTAATA
1 TAATCATTATAAAAATGATTTAATA
1886766 CTAATGATTT
Statistics
Matches: 256, Mismatches: 12, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
120 4 0.02
121 13 0.05
122 17 0.07
123 90 0.35
124 132 0.52
ACGTcount: A:0.43, C:0.02, G:0.09, T:0.46
Consensus pattern (124 bp):
TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
TTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAA
Found at i:1886772 original size:14 final size:14
Alignment explanation
Indices: 1886431--1886781 Score: 119
Period size: 14 Copynumber: 26.1 Consensus size: 14
1886421 GATGATTTAG
*
1886431 TAATGATTTGATAA
1 TAATGATTTAATAA
* *
1886445 TAATCA-TT-ATAG
1 TAATGATTTAATAA
*
1886457 TAATGATTTGATAA
1 TAATGATTTAATAA
*
1886471 TAATCA-TT-ATAA
1 TAATGATTTAATAA
*
1886483 TAATGATTTAGTAA
1 TAATGATTTAATAA
*
1886497 TAATCA-TT-ATAA
1 TAATGATTTAATAA
*
1886509 AAATGA-TT--TAA
1 TAATGATTTAATAA
**
1886520 TAATGATTTAAATTTT
1 TAATGATTT-AA-TAA
* *
1886536 TAATAATTTGATGATTTAG
1 TAATGATTT-A--A--TAA
*
1886555 TAATGATTTGATAA
1 TAATGATTTAATAA
* *
1886569 TAATCA-TT-ATAG
1 TAATGATTTAATAA
*
1886581 TAATGATTTGATAA
1 TAATGATTTAATAA
*
1886595 TAATCA-TT-ATAA
1 TAATGATTTAATAA
*
1886607 TAATGATTTAGTAA
1 TAATGATTTAATAA
*
1886621 TAATCA-TT-ATAA
1 TAATGATTTAATAA
1886633 -AATGA-TT--TAA
1 TAATGATTTAATAA
*
1886643 TAATGATTTAAATATT
1 TAATGATTT-AATA-A
*
1886659 TAATGATTTGATGATTTAG
1 TAATGATTT-A--A--TAA
*
1886678 TAATGATTTGATAA
1 TAATGATTTAATAA
*
1886692 TAATCA-TT-ATAA
1 TAATGATTTAATAA
*
1886704 TAATGATTTTATAA
1 TAATGATTTAATAA
* *
1886718 TAATTATTTAGT--
1 TAATGATTTAATAA
* *
1886730 T-ATTATTTAGTAA
1 TAATGATTTAATAA
1886743 T--T-ATTT-ATAA
1 TAATGATTTAATAA
*
1886753 TAATGATTTAATAC
1 TAATGATTTAATAA
1886767 TAATGATTTAATAA
1 TAATGATTTAATAA
1886781 T
1 T
1886782 TATTACTAAT
Statistics
Matches: 259, Mismatches: 44, Indels: 68
0.70 0.12 0.18
Matches are distributed among these distances:
10 7 0.03
11 33 0.13
12 62 0.24
13 29 0.11
14 81 0.31
15 2 0.01
16 22 0.08
18 2 0.01
19 19 0.07
20 2 0.01
ACGTcount: A:0.43, C:0.02, G:0.09, T:0.46
Consensus pattern (14 bp):
TAATGATTTAATAA
Found at i:1886804 original size:38 final size:38
Alignment explanation
Indices: 1886734--1886807 Score: 96
Period size: 38 Copynumber: 1.9 Consensus size: 38
1886724 TTTAGTTATT
* **
1886734 ATTTAGTAATTATTTATAATAATGATTTAATACTAATG
1 ATTTAATAATTATTTATAATAATGATAGAATACTAATG
*
1886772 ATTTAATAATTA-TTACTAATAATTATAGAATACTAA
1 ATTTAATAATTATTTA-TAATAATGATAGAATACTAA
1886808 CAAATGAGTG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
37 3 0.10
38 28 0.90
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.45
Consensus pattern (38 bp):
ATTTAATAATTATTTATAATAATGATAGAATACTAATG
Found at i:1887014 original size:17 final size:17
Alignment explanation
Indices: 1886989--1887021 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1886979 ACTAAATATT
*
1886989 TAATTATTTGATACTAG
1 TAATGATTTGATACTAG
1887006 TAATGATTTGATACTA
1 TAATGATTTGATACTA
1887022 AAATCATTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.06, G:0.12, T:0.45
Consensus pattern (17 bp):
TAATGATTTGATACTAG
Found at i:1887014 original size:25 final size:23
Alignment explanation
Indices: 1886935--1887014 Score: 67
Period size: 24 Copynumber: 3.3 Consensus size: 23
1886925 GATTTATTGT
1886935 TAATATTTAATTATTTGATAC--
1 TAATATTTAATTATTTGATACTA
* *
1886956 TAATGATTTAAAATAGTTGATTTACTA
1 TAAT-ATTT-AATTATTTGA--TACTA
1886983 -AATATTTAATTATTTGATACTA
1 TAATATTTAATTATTTGATACTA
1887005 GTAATGATTT
1 -TAAT-ATTT
1887015 GATACTAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
21 4 0.09
22 9 0.20
23 8 0.17
24 11 0.24
25 11 0.24
26 3 0.07
ACGTcount: A:0.39, C:0.04, G:0.09, T:0.49
Consensus pattern (23 bp):
TAATATTTAATTATTTGATACTA
Found at i:1889191 original size:15 final size:14
Alignment explanation
Indices: 1889168--1889198 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
1889158 TACAACACTA
1889168 AACTTTAATATAAT
1 AACTTTAATATAAT
1889182 AACTTATAATATAAT
1 AACTT-TAATATAAT
1889197 AA
1 AA
1889199 ACTAACAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (14 bp):
AACTTTAATATAAT
Found at i:1889315 original size:34 final size:32
Alignment explanation
Indices: 1889251--1889332 Score: 89
Period size: 34 Copynumber: 2.6 Consensus size: 32
1889241 GCTAAACCCT
*
1889251 TAAAC-AACTAATAAAATATTCTTCTATATAA
1 TAAACTAACTAATAAACTATTCTTCTATATAA
*
1889282 CTAAAACTAACTAATAAACTATTTTTC-ATTATAA
1 -T-AAACTAACTAATAAACTATTCTTCTA-TATAA
*
1889316 TATACT-ACTAATAAACT
1 TAAACTAACTAATAAACT
1889333 TACTAACTAA
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
31 11 0.25
32 5 0.11
33 6 0.14
34 22 0.50
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.37
Consensus pattern (32 bp):
TAAACTAACTAATAAACTATTCTTCTATATAA
Found at i:1889475 original size:47 final size:47
Alignment explanation
Indices: 1889372--1889462 Score: 134
Period size: 45 Copynumber: 2.0 Consensus size: 47
1889362 CAACAAACAA
*
1889372 ATATAACTTAACTATTTAACTAACACAAACTAATTAAATAATTTTTTT
1 ATATAAC-TAACTATTTAACTAAAACAAACTAATTAAATAATTTTTTT
*
1889420 ATATAACTAACTA-TTAAC-AAAACAAACTAATT-AATTATTTTTT
1 ATATAACTAACTATTTAACTAAAACAAACTAATTAAATAATTTTTT
1889463 AACTATATAA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
44 10 0.24
45 13 0.32
46 5 0.12
47 6 0.15
48 7 0.17
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (47 bp):
ATATAACTAACTATTTAACTAAAACAAACTAATTAAATAATTTTTTT
Found at i:1889696 original size:21 final size:21
Alignment explanation
Indices: 1889666--1889718 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
1889656 CCCTTTCTTC
*
1889666 TTCTTACTTTCCTTTCTCCCT
1 TTCTTTCTTTCCTTTCTCCCT
1889687 TTCTTTCTTTCCTTTCTCCCT
1 TTCTTTCTTTCCTTTCTCCCT
1889708 TTCTTTCTTTC
1 TTCTTTCTTTC
1889719 TCGGCTGCAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.02, C:0.36, G:0.00, T:0.62
Consensus pattern (21 bp):
TTCTTTCTTTCCTTTCTCCCT
Found at i:1889709 original size:17 final size:16
Alignment explanation
Indices: 1889689--1889720 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
1889679 TTCTCCCTTT
1889689 CTTTCTTTCCTTTCTCC
1 CTTTCTTT-CTTTCTCC
1889706 CTTTCTTTCTTTCTC
1 CTTTCTTTCTTTCTC
1889721 GGCTGCAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (16 bp):
CTTTCTTTCTTTCTCC
Found at i:1889736 original size:25 final size:23
Alignment explanation
Indices: 1889722--1889765 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
1889712 TTCTTTCTCG
1889722 GCTGCAATCTCTTCTCCCTTTCT
1 GCTGCAATCTCTTCTCCCTTTCT
*
1889745 TCTGCAATCTCTTCTCCCTTT
1 GCTGCAATCTCTTCTCCCTTT
1889766 ATTTCTTTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.09, C:0.39, G:0.07, T:0.45
Consensus pattern (23 bp):
GCTGCAATCTCTTCTCCCTTTCT
Found at i:1889809 original size:25 final size:25
Alignment explanation
Indices: 1889781--1889832 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
1889771 TTTCTTTTAT
1889781 AACCGGCTGCCTCAATTATTTCACC
1 AACCGGCTGCCTCAATTATTTCACC
1889806 AACCGGCTGCCTCAATTATTTCACC
1 AACCGGCTGCCTCAATTATTTCACC
1889831 AA
1 AA
1889833 TAATTGTACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.27, C:0.35, G:0.12, T:0.27
Consensus pattern (25 bp):
AACCGGCTGCCTCAATTATTTCACC
Found at i:1890051 original size:29 final size:29
Alignment explanation
Indices: 1890019--1890155 Score: 233
Period size: 29 Copynumber: 4.8 Consensus size: 29
1890009 ATGGGAATGG
1890019 CGCCGGGACTACATGGCGACCTACAAGGT
1 CGCCGGGACTACATGGCGACCTACAAGGT
1890048 CGCCGGGACTACATGGCGACCTACAAGGT
1 CGCCGGGACTACATGGCGACCTACAAGGT
1890077 CGCCGGGACTACATGGCGACCTACAAGGT
1 CGCCGGGACTACATGGCGACCTACAAGGT
1890106 CGCCGGGACTACATGGC-ACCTACAAGGT
1 CGCCGGGACTACATGGCGACCTACAAGGT
* *
1890134 CGCCTAGG-CTGCATGGCGACCT
1 CGCC-GGGACTACATGGCGACCT
1890156 CTCTATTCCT
Statistics
Matches: 104, Mismatches: 2, Indels: 4
0.95 0.02 0.04
Matches are distributed among these distances:
28 23 0.22
29 81 0.78
ACGTcount: A:0.23, C:0.32, G:0.31, T:0.15
Consensus pattern (29 bp):
CGCCGGGACTACATGGCGACCTACAAGGT
Found at i:1890229 original size:35 final size:35
Alignment explanation
Indices: 1890190--1890412 Score: 239
Period size: 35 Copynumber: 6.0 Consensus size: 35
1890180 TGGCGACCTC
*
1890190 GCATGGGGAGAACCATTGGCTCATATGGCTCGTAT
1 GCATGGGGAGAACCATTGGCTCGTATGGCTCGTAT
1890225 GCATGGGGAGAACCATTGGCTCGTATGGCTCGTAT
1 GCATGGGGAGAACCATTGGCTCGTATGGCTCGTAT
1890260 GCATGGGGAGAACCATTGGCTCGTATGGCTCGTAT
1 GCATGGGGAGAACCATTGGCTCGTATGGCTCGTAT
* ** * ** * **
1890295 GTCACCCCGTATGTCACCGGAGAACCATTGGCTCGTATGGCTCGTAT
1 G-CA-----T-GGGGA---GA-ACCATTGGCT-CGTATGGCTCGTAT
1890342 GCATGGGGAGAACCATTGGCTCGTATGGCTCGTAT
1 GCATGGGGAGAACCATTGGCTCGTATGGCTCGTAT
*
1890377 GCATGGGGAGAACCATTGGCTCGTATAGCTCGTAT
1 GCATGGGGAGAACCATTGGCTCGTATGGCTCGTAT
1890412 G
1 G
1890413 TCACCCCGTA
Statistics
Matches: 156, Mismatches: 20, Indels: 24
0.78 0.10 0.12
Matches are distributed among these distances:
35 119 0.76
36 6 0.04
37 2 0.01
40 2 0.01
41 2 0.01
42 2 0.01
45 2 0.01
46 6 0.04
47 15 0.10
ACGTcount: A:0.21, C:0.22, G:0.32, T:0.26
Consensus pattern (35 bp):
GCATGGGGAGAACCATTGGCTCGTATGGCTCGTAT
Found at i:1890402 original size:117 final size:117
Alignment explanation
Indices: 1890196--1890426 Score: 444
Period size: 117 Copynumber: 2.0 Consensus size: 117
1890186 CCTCGCATGG
1890196 GGAGAACCATTGGCTCATATGGCTCGTATGCATGGGGAGAACCATTGGCTCGTATGGCTCGTATG
1 GGAGAACCATTGGCTCATATGGCTCGTATGCATGGGGAGAACCATTGGCTCGTATGGCTCGTATG
*
1890261 CATGGGGAGAACCATTGGCTCGTATGGCTCGTATGTCACCCCGTATGTCACC
66 CATGGGGAGAACCATTGGCTCGTATAGCTCGTATGTCACCCCGTATGTCACC
*
1890313 GGAGAACCATTGGCTCGTATGGCTCGTATGCATGGGGAGAACCATTGGCTCGTATGGCTCGTATG
1 GGAGAACCATTGGCTCATATGGCTCGTATGCATGGGGAGAACCATTGGCTCGTATGGCTCGTATG
1890378 CATGGGGAGAACCATTGGCTCGTATAGCTCGTATGTCACCCCGTATGTC
66 CATGGGGAGAACCATTGGCTCGTATAGCTCGTATGTCACCCCGTATGTC
1890427 GCCTGGATTG
Statistics
Matches: 112, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
117 112 1.00
ACGTcount: A:0.20, C:0.23, G:0.30, T:0.26
Consensus pattern (117 bp):
GGAGAACCATTGGCTCATATGGCTCGTATGCATGGGGAGAACCATTGGCTCGTATGGCTCGTATG
CATGGGGAGAACCATTGGCTCGTATAGCTCGTATGTCACCCCGTATGTCACC
Found at i:1890469 original size:29 final size:29
Alignment explanation
Indices: 1890424--1890482 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
1890414 CACCCCGTAT
* *
1890424 GTCGCCTGGATTGCATGGCGTCCTACAAG
1 GTCGCCCGGATTGCATGGCGACCTACAAG
*
1890453 GTCGCCCGGA-TGCCATGGCGACCTCCAAG
1 GTCGCCCGGATTG-CATGGCGACCTACAAG
1890482 G
1 G
1890483 CCACTGTAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 2 0.08
29 24 0.92
ACGTcount: A:0.17, C:0.32, G:0.32, T:0.19
Consensus pattern (29 bp):
GTCGCCCGGATTGCATGGCGACCTACAAG
Found at i:1894219 original size:13 final size:13
Alignment explanation
Indices: 1894201--1894225 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1894191 AAAGGGAGAA
1894201 TTTGTTGATTTTT
1 TTTGTTGATTTTT
1894214 TTTGTTGATTTT
1 TTTGTTGATTTT
1894226 GTGTATGATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.00, G:0.16, T:0.76
Consensus pattern (13 bp):
TTTGTTGATTTTT
Found at i:1897935 original size:43 final size:42
Alignment explanation
Indices: 1897866--1897950 Score: 161
Period size: 43 Copynumber: 2.0 Consensus size: 42
1897856 CTTCGGATTT
1897866 ATTTATTATCATTTTTTCTTTGAATTATATGGTTAGTAGAGC
1 ATTTATTATCATTTTTTCTTTGAATTATATGGTTAGTAGAGC
1897908 ATTTATTATCACTTTTTTCTTTGAATTATATGGTTAGTAGAGC
1 ATTTATTATCA-TTTTTTCTTTGAATTATATGGTTAGTAGAGC
1897951 TTAAAACTGA
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
42 11 0.26
43 31 0.74
ACGTcount: A:0.26, C:0.08, G:0.14, T:0.52
Consensus pattern (42 bp):
ATTTATTATCATTTTTTCTTTGAATTATATGGTTAGTAGAGC
Found at i:1903703 original size:35 final size:35
Alignment explanation
Indices: 1903664--1903734 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
1903654 CATACATGAT
1903664 ATGAAATGATAACACATTTGGATAATCTAAAATAA
1 ATGAAATGATAACACATTTGGATAATCTAAAATAA
1903699 ATGAAATGATAACACATTTGGATAATCTAAAATAA
1 ATGAAATGATAACACATTTGGATAATCTAAAATAA
1903734 A
1 A
1903735 CAAACAATTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.52, C:0.08, G:0.11, T:0.28
Consensus pattern (35 bp):
ATGAAATGATAACACATTTGGATAATCTAAAATAA
Found at i:1908069 original size:12 final size:12
Alignment explanation
Indices: 1908052--1908079 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
1908042 GTAGATTCCC
1908052 ATGTCAACAAGA
1 ATGTCAACAAGA
1908064 ATGTCAACAAGA
1 ATGTCAACAAGA
1908076 ATGT
1 ATGT
1908080 TCTTTACATC
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:0.46, C:0.14, G:0.18, T:0.21
Consensus pattern (12 bp):
ATGTCAACAAGA
Found at i:1910052 original size:39 final size:39
Alignment explanation
Indices: 1910002--1910078 Score: 154
Period size: 39 Copynumber: 2.0 Consensus size: 39
1909992 TGCCATGAAT
1910002 CTGCTTATAACACTGACAGCGTAAGCCAAGTCTGGTCTG
1 CTGCTTATAACACTGACAGCGTAAGCCAAGTCTGGTCTG
1910041 CTGCTTATAACACTGACAGCGTAAGCCAAGTCTGGTCT
1 CTGCTTATAACACTGACAGCGTAAGCCAAGTCTGGTCT
1910079 ACAGCAAACC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (39 bp):
CTGCTTATAACACTGACAGCGTAAGCCAAGTCTGGTCTG
Found at i:1917591 original size:22 final size:21
Alignment explanation
Indices: 1917543--1917587 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1917533 CGGTAAAAAA
* * *
1917543 TTACCTAAAATATTATTATTT
1 TTACATAAAACATTAATATTT
1917564 TTACATAAAACATTAATATTT
1 TTACATAAAACATTAATATTT
1917585 TTA
1 TTA
1917588 ACATTTTCGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.49
Consensus pattern (21 bp):
TTACATAAAACATTAATATTT
Found at i:1926633 original size:51 final size:51
Alignment explanation
Indices: 1926571--1926775 Score: 235
Period size: 50 Copynumber: 4.1 Consensus size: 51
1926561 TTCATACTAC
*
1926571 ATAAA-AA-TGTAGCAATTAACACATATTTACATC-GGTGTAAGTGAATAAA
1 ATAAACAAGTGTAGCACTTAACACATATTTACA-CGGGTGTAAGTGAATAAA
* * ***
1926620 ATAAACAAGTGTAGCACTTAACACGTACTTACACCAATGTAAGTGAA-AAA
1 ATAAACAAGTGTAGCACTTAACACATATTTACACGGGTGTAAGTGAATAAA
* * *
1926670 ATAAACAAGTGTAGCACTTAATACGTACTTT-CACTGGTGTAAGTGAATAAA
1 ATAAACAAGTGTAGCACTTAACACATA-TTTACACGGGTGTAAGTGAATAAA
* *
1926721 A-CAACAAATTGTAGCACTTAACACATA-TTACACGGGTGTAAGTGAATAAA
1 ATAAAC-AAGTGTAGCACTTAACACATATTTACACGGGTGTAAGTGAATAAA
1926771 ATAAA
1 ATAAA
1926776 AAAAGTATAA
Statistics
Matches: 132, Mismatches: 16, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
49 7 0.05
50 68 0.52
51 57 0.43
ACGTcount: A:0.45, C:0.14, G:0.15, T:0.26
Consensus pattern (51 bp):
ATAAACAAGTGTAGCACTTAACACATATTTACACGGGTGTAAGTGAATAAA
Found at i:1926859 original size:51 final size:51
Alignment explanation
Indices: 1926573--1926858 Score: 263
Period size: 51 Copynumber: 5.8 Consensus size: 51
1926563 CATACTACAT
* * *
1926573 AAAAA-TGTAGCAATTAACACATATTTACA-TCGGTGTAAGTGAATAAAATA
1 AAAAAGTGTAGCACTTAACACATACTTACACT-GATGTAAGTGAATAAAATA
* * **
1926623 AACAAGTGTAGCACTTAACACGTACTTACACCAATGTAAGTGAA-AAAATA
1 AAAAAGTGTAGCACTTAACACATACTTACACTGATGTAAGTGAATAAAATA
* * * * * *
1926673 AACAAGTGTAGCACTTAATACGTACTTTCACTGGTGTAAGTGAATAAAACA
1 AAAAAGTGTAGCACTTAACACATACTTACACTGATGTAAGTGAATAAAATA
* * * *
1926724 ACAAATTGTAGCACTTAACACATA-TTACACGGGTGTAAGTGAATAAAATAA
1 AAAAAGTGTAGCACTTAACACATACTTACACTGATGTAAGTGAATAAAAT-A
* * * *
1926775 AAAAAGTATAACACTTGACAC--A---ACA---ATGTAAGTAAATAAAATA
1 AAAAAGTGTAGCACTTAACACATACTTACACTGATGTAAGTGAATAAAATA
* *
1926818 AAAAAGTATAGCACTTAACATATACTTACACTGATGTAAGT
1 AAAAAGTGTAGCACTTAACACATACTTACACTGATGTAAGT
1926859 ATGTACATCT
Statistics
Matches: 193, Mismatches: 31, Indels: 23
0.78 0.13 0.09
Matches are distributed among these distances:
43 19 0.10
44 15 0.08
45 1 0.01
47 3 0.02
48 3 0.02
49 1 0.01
50 71 0.37
51 80 0.41
ACGTcount: A:0.47, C:0.14, G:0.14, T:0.26
Consensus pattern (51 bp):
AAAAAGTGTAGCACTTAACACATACTTACACTGATGTAAGTGAATAAAATA
Found at i:1937343 original size:17 final size:18
Alignment explanation
Indices: 1937313--1937366 Score: 51
Period size: 17 Copynumber: 3.1 Consensus size: 18
1937303 ATTTAAATTG
*
1937313 ATAT-ATTTTTATATAAT
1 ATATAATTTTAATATAAT
1937330 AT-TAATTTTAATAT-AT
1 ATATAATTTTAATATAAT
* *
1937346 TTATAATTTATAATCTAAT
1 ATATAATTT-TAATATAAT
1937365 AT
1 AT
1937367 CTAAAACTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
16 4 0.14
17 17 0.59
18 5 0.17
19 3 0.10
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (18 bp):
ATATAATTTTAATATAAT
Found at i:1937343 original size:25 final size:24
Alignment explanation
Indices: 1937289--1937350 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 24
1937279 ATCATCATGA
1937289 AATATTTCTT-TATAATTTAAATTG
1 AATATTT-TTATATAATTTAAATTG
* *
1937313 ATATATTTTTATATAATATTAATTTT
1 A-ATATTTTTATATAAT-TTAAATTG
*
1937339 AATATATTTATA
1 AATATTTTTATA
1937351 ATTTATAATC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
24 3 0.09
25 22 0.69
26 7 0.22
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (24 bp):
AATATTTTTATATAATTTAAATTG
Done.