Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 6 of 433
Found at i:1730242 original size:152 final size:150
Alignment explanation
Indices: 1729872--1730250 Score: 424
Period size: 152 Copynumber: 2.5 Consensus size: 150
1729862 TTTAACAATT
* *
1729872 CGCTTGATTTAATCTCGTGA-TAGTCATTTTTATGGTCTGTTGATTTAAGATTGAGACCATCGGT
1 CGCTTGATTTAATCTCGTGACT-GTCATTTTTATGGTCTGTTGATTTAAGA-TCAGACCTTCGGT
* ** * ** *
1729936 TTTCTAACAATTTGTTGATTTAATATTGCAACTGTCATTTTTACGATCCGCTTATCTAAGATCGC
64 TTTCTAACAGTTACTTGATTTAATATCGCAACTACCATTTTTACGATCCGCTAATCTAAGATCGC
* *
1730001 AACCTTTGATTTTCTAACAGTT
129 AACCTTAGATTTTCTAACAGTA
* * ** *
1730023 TGCTTGATTTAATCTCGTGACTGTCATTTTTACGGTCTGCTT-ATTTAAGATTGTGACCTTCGAT
1 CGCTTGATTTAATCTCGTGACTGTCATTTTTATGGTCTG-TTGATTTAAGA-TCAGACCTTCGGT
* * * * *
1730087 TTTCTAACAGTTCACTTGCTTTAATCTCGCAACTACCATTTTTACGGTCCGCTAATTTAATATCG
64 TTTCTAACAGTT-ACTTGATTTAATATCGCAACTACCATTTTTACGATCCGCTAATCTAAGATCG
*
1730152 CAACCTTCAG-TTTTCTAATAGTA
128 CAACCTT-AGATTTTCTAACAGTA
** * *
1730175 CGCTTGATTTAATCTCGCAACTGTCATTTTTATGG-CTCGTTGATTTAATATCACGACTTTCGGT
1 CGCTTGATTTAATCTCGTGACTGTCATTTTTATGGTCT-GTTGATTTAAGATCA-GACCTTCGGT
1730239 TTTCTAACAGTT
64 TTTCTAACAGTT
1730251 TGCTAATTCA
Statistics
Matches: 192, Mismatches: 29, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
151 70 0.36
152 121 0.63
153 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.15, T:0.43
Consensus pattern (150 bp):
CGCTTGATTTAATCTCGTGACTGTCATTTTTATGGTCTGTTGATTTAAGATCAGACCTTCGGTTT
TCTAACAGTTACTTGATTTAATATCGCAACTACCATTTTTACGATCCGCTAATCTAAGATCGCAA
CCTTAGATTTTCTAACAGTA
Found at i:1730665 original size:18 final size:19
Alignment explanation
Indices: 1730639--1730681 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
1730629 CTCTCTTTGT
*
1730639 TTTTGAAATCTTAAA-ATA
1 TTTTAAAATCTTAAATATA
*
1730657 TTTTAAAATTTTAAATATA
1 TTTTAAAATCTTAAATATA
1730676 TATTTA
1 T-TTTA
1730682 TATTCATCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 13 0.62
19 4 0.19
20 4 0.19
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (19 bp):
TTTTAAAATCTTAAATATA
Found at i:1733468 original size:14 final size:15
Alignment explanation
Indices: 1733446--1733484 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
1733436 ATATTTTAAT
1733446 TATTTATGTTTGAAA
1 TATTTATGTTTGAAA
* *
1733461 TA-TTATGTTTTAAT
1 TATTTATGTTTGAAA
1733475 TATTTATGTT
1 TATTTATGTT
1733485 ATCATTTTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.28, C:0.00, G:0.10, T:0.62
Consensus pattern (15 bp):
TATTTATGTTTGAAA
Found at i:1735633 original size:18 final size:18
Alignment explanation
Indices: 1735610--1735644 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
1735600 AATATTTAAT
1735610 TAAATTTTTAAAGTTATC
1 TAAATTTTTAAAGTTATC
1735628 TAAATTTTTAAAGTTAT
1 TAAATTTTTAAAGTTAT
1735645 TTATGTGATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.40, C:0.03, G:0.06, T:0.51
Consensus pattern (18 bp):
TAAATTTTTAAAGTTATC
Found at i:1741472 original size:3 final size:3
Alignment explanation
Indices: 1741466--1741534 Score: 52
Period size: 3 Copynumber: 23.0 Consensus size: 3
1741456 AAAAAAAATT
* * * * *
1741466 TAA TAA TAA TAA TAA CAA TAA TTA TAA TAA TAGC T-A TCA TAA TAT
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA
*
1741511 TAA T-A TAAA TAA CAA TAA TAA TAA
1 TAA TAA T-AA TAA TAA TAA TAA TAA
1741535 GAAGAATAGT
Statistics
Matches: 51, Mismatches: 11, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
2 3 0.06
3 45 0.88
4 3 0.06
ACGTcount: A:0.59, C:0.06, G:0.01, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:1741780 original size:2 final size:2
Alignment explanation
Indices: 1741773--1741806 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1741763 TATATGAATA
1741773 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1741807 GTAAAATAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1742563 original size:20 final size:22
Alignment explanation
Indices: 1742538--1742586 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
1742528 ATCGACCATC
1742538 GTGACGGC-C-GCCAGTTATTG
1 GTGACGGCACTGCCAGTTATTG
*
1742558 GTGACGGCACTGCCGGTTATTG
1 GTGACGGCACTGCCAGTTATTG
*
1742580 GCGACGG
1 GTGACGG
1742587 TGTCGCCGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 8 0.32
21 1 0.04
22 16 0.64
ACGTcount: A:0.14, C:0.24, G:0.39, T:0.22
Consensus pattern (22 bp):
GTGACGGCACTGCCAGTTATTG
Found at i:1746181 original size:23 final size:23
Alignment explanation
Indices: 1746153--1746201 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
1746143 GTATGATAAC
1746153 TTAGCTTAAAGTTTGGCACGTGT
1 TTAGCTTAAAGTTTGGCACGTGT
* * **
1746176 TTAGCTTGAGGTTTGTTACGTGT
1 TTAGCTTAAAGTTTGGCACGTGT
1746199 TTA
1 TTA
1746202 TATTCATGGC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.18, C:0.10, G:0.27, T:0.45
Consensus pattern (23 bp):
TTAGCTTAAAGTTTGGCACGTGT
Found at i:1747927 original size:13 final size:14
Alignment explanation
Indices: 1747900--1747929 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
1747890 AAAAAATGAT
1747900 ATTAATGCTAATTA
1 ATTAATGCTAATTA
1747914 ATTAATGC-AATTA
1 ATTAATGCTAATTA
1747927 ATT
1 ATT
1747930 TTTTTCCTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (14 bp):
ATTAATGCTAATTA
Found at i:1751205 original size:29 final size:28
Alignment explanation
Indices: 1751135--1751209 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
1751125 ATACTCGATT
* *
1751135 TCGCACACTTAGTGCCATGCGATTTAGC
1 TCGCACACTTAGTGCCATGCCATTGAGC
* ** *
1751163 CCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGCCATT-GAGC
1751192 TCGCACACTTAGTGCCAT
1 TCGCACACTTAGTGCCAT
1751210 ATATTTCCAG
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
28 19 0.51
29 18 0.49
ACGTcount: A:0.21, C:0.36, G:0.20, T:0.23
Consensus pattern (28 bp):
TCGCACACTTAGTGCCATGCCATTGAGC
Found at i:1751226 original size:29 final size:29
Alignment explanation
Indices: 1751193--1751266 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
1751183 CCTTCGAGCT
1751193 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
1751222 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
1751251 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
1751267 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:1759081 original size:29 final size:28
Alignment explanation
Indices: 1759011--1759085 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
1759001 ATACTCGATT
* *
1759011 TCGCACACTTAGTGCCATGCGATTTAGC
1 TCGCACACTTAGTGCCATGCCATTGAGC
* ** *
1759039 CCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGCCATT-GAGC
1759068 TCGCACACTTAGTGCCAT
1 TCGCACACTTAGTGCCAT
1759086 ATATTTCCAG
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
28 19 0.51
29 18 0.49
ACGTcount: A:0.21, C:0.36, G:0.20, T:0.23
Consensus pattern (28 bp):
TCGCACACTTAGTGCCATGCCATTGAGC
Found at i:1759102 original size:29 final size:29
Alignment explanation
Indices: 1759069--1759142 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
1759059 CCTTCGAGCT
1759069 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
1759098 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
1759127 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
1759143 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:1761193 original size:15 final size:16
Alignment explanation
Indices: 1761144--1761198 Score: 51
Period size: 15 Copynumber: 3.6 Consensus size: 16
1761134 TTTTGCTTCT
* *
1761144 TTTTAATTTTGTCCTA
1 TTTTATTTTTATCCTA
* * *
1761160 TTTCATTTTTAT-TTG
1 TTTTATTTTTATCCTA
1761175 TTTTATTTTTATCCT-
1 TTTTATTTTTATCCTA
1761190 TTTTATTTT
1 TTTTATTTT
1761199 GTTCTTGTGC
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
15 21 0.68
16 10 0.32
ACGTcount: A:0.15, C:0.09, G:0.04, T:0.73
Consensus pattern (16 bp):
TTTTATTTTTATCCTA
Found at i:1761676 original size:12 final size:11
Alignment explanation
Indices: 1761652--1761744 Score: 52
Period size: 10 Copynumber: 8.4 Consensus size: 11
1761642 TACTTTTTTA
1761652 TATTATTTCAT
1 TATTATTTCAT
1761663 TATTATTATCAT
1 TATTATT-TCAT
1761675 TATTA--TCAT
1 TATTATTTCAT
* *
1761684 ATAGTATTATTAAT
1 -TATTA-T-TTCAT
*
1761698 TAAATATTT-AT
1 T-ATTATTTCAT
1761709 TATTATTTC-T
1 TATTATTTCAT
1761719 TATTATTGTCAT
1 TATTATT-TCAT
* *
1761731 T-TCATCTCAT
1 TATTATTTCAT
1761741 TATT
1 TATT
1761745 CATGTGGTTA
Statistics
Matches: 64, Mismatches: 7, Indels: 22
0.69 0.08 0.24
Matches are distributed among these distances:
9 4 0.06
10 23 0.36
11 16 0.25
12 13 0.20
13 2 0.03
14 6 0.09
ACGTcount: A:0.31, C:0.09, G:0.02, T:0.58
Consensus pattern (11 bp):
TATTATTTCAT
Found at i:1767375 original size:20 final size:21
Alignment explanation
Indices: 1767350--1767392 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 21
1767340 TAGATAAATA
*
1767350 TTATGAATCTTTTTTA-TTTT
1 TTATGAAGCTTTTTTACTTTT
1767370 TTATGAAGCTTTTTTACTTTT
1 TTATGAAGCTTTTTTACTTTT
1767391 TT
1 TT
1767393 TAAAGTGCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 15 0.71
21 6 0.29
ACGTcount: A:0.19, C:0.07, G:0.07, T:0.67
Consensus pattern (21 bp):
TTATGAAGCTTTTTTACTTTT
Found at i:1773473 original size:15 final size:14
Alignment explanation
Indices: 1773455--1773488 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
1773445 TTCCTCAAAG
*
1773455 TTTTGATTTTTATGT
1 TTTTGATTTTGAT-T
1773470 TTTTGATTTTGATT
1 TTTTGATTTTGATT
1773484 TTTTG
1 TTTTG
1773489 TTGTGTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.12, C:0.00, G:0.15, T:0.74
Consensus pattern (14 bp):
TTTTGATTTTGATT
Found at i:1777387 original size:5 final size:5
Alignment explanation
Indices: 1777377--1777410 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
1777367 GCTTTGGACT
1777377 CCACG CCACG CCACG CCACG CCACG CCACG CCAC
1 CCACG CCACG CCACG CCACG CCACG CCACG CCAC
1777411 CCCATCACAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.21, C:0.62, G:0.18, T:0.00
Consensus pattern (5 bp):
CCACG
Found at i:1778187 original size:16 final size:16
Alignment explanation
Indices: 1778168--1778209 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
1778158 AAATGGCATG
1778168 AACTCAAAATAACCTA
1 AACTCAAAATAACCTA
* *
1778184 AACT-AGAAATGATCTA
1 AACTCA-AAATAACCTA
1778200 AACTCAAAAT
1 AACTCAAAAT
1778210 TCATATAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 1 0.05
16 20 0.91
17 1 0.05
ACGTcount: A:0.55, C:0.19, G:0.05, T:0.21
Consensus pattern (16 bp):
AACTCAAAATAACCTA
Found at i:1782098 original size:31 final size:31
Alignment explanation
Indices: 1782052--1782118 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
1782042 ATTATAAAAT
* * *
1782052 AGTTATTGAATTATTCGAAAGATTTCATTTA
1 AGTTATTAAACTATTCAAAAGATTTCATTTA
* *
1782083 AGTTATTAAACTATTCAAAAGCTTTTATTTA
1 AGTTATTAAACTATTCAAAAGATTTCATTTA
1782114 AGTTA
1 AGTTA
1782119 CTTGGTTGCT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.37, C:0.07, G:0.10, T:0.45
Consensus pattern (31 bp):
AGTTATTAAACTATTCAAAAGATTTCATTTA
Found at i:1783066 original size:24 final size:24
Alignment explanation
Indices: 1783039--1783086 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
1783029 ACCAAGCAAA
1783039 ACCAAAGTGCTTTGGGAAAAATGG
1 ACCAAAGTGCTTTGGGAAAAATGG
1783063 ACCAAAGTGCTTTGGGAAAAATGG
1 ACCAAAGTGCTTTGGGAAAAATGG
1783087 GTTTTAGATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.12, G:0.29, T:0.21
Consensus pattern (24 bp):
ACCAAAGTGCTTTGGGAAAAATGG
Found at i:1787928 original size:16 final size:17
Alignment explanation
Indices: 1787907--1787944 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
1787897 AATTAAAATA
*
1787907 TATAAAATCTAATA-TT
1 TATAAAATATAATATTT
*
1787923 TATAAAATATCATATTT
1 TATAAAATATAATATTT
1787940 TATAA
1 TATAA
1787945 CAAATATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 12 0.63
17 7 0.37
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (17 bp):
TATAAAATATAATATTT
Found at i:1787968 original size:25 final size:26
Alignment explanation
Indices: 1787923--1787977 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
1787913 ATCTAATATT
*
1787923 TATAAAATATCATATTTTATA-ACAAA
1 TATAAAAAATCATATTTTATATA-AAA
*
1787949 TATAAAAAAT-ATGTTTTATATAAAA
1 TATAAAAAATCATATTTTATATAAAA
1787974 TATA
1 TATA
1787978 TGAAATCTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 16 0.62
26 10 0.38
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.40
Consensus pattern (26 bp):
TATAAAAAATCATATTTTATATAAAA
Found at i:1790930 original size:30 final size:31
Alignment explanation
Indices: 1790886--1790949 Score: 112
Period size: 30 Copynumber: 2.1 Consensus size: 31
1790876 GCTTATTTTA
1790886 TTGTTAATTTTTGTTATTATTTTAAAGATAT
1 TTGTTAATTTTTGTTATTATTTTAAAGATAT
*
1790917 TTGTTAA-TTTTGTTATTATTTTAGAGATAT
1 TTGTTAATTTTTGTTATTATTTTAAAGATAT
1790947 TTG
1 TTG
1790950 CTTGTTAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 25 0.78
31 7 0.22
ACGTcount: A:0.27, C:0.00, G:0.12, T:0.61
Consensus pattern (31 bp):
TTGTTAATTTTTGTTATTATTTTAAAGATAT
Found at i:1791103 original size:12 final size:12
Alignment explanation
Indices: 1791073--1791105 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
1791063 TATATATTTT
1791073 AAAATT-ATATA
1 AAAATTAATATA
1791084 AAAA-TAATATA
1 AAAATTAATATA
1791095 AAAATTAATAT
1 AAAATTAATAT
1791106 GGGTGGGTCG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:1792287 original size:27 final size:26
Alignment explanation
Indices: 1792257--1792309 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 26
1792247 CATTTTCCTT
*
1792257 TTTTAAATAATTTTTATACTTTTATAA
1 TTTTAAATAATTTTTATA-ATTTATAA
*
1792284 TTTTAAATATTTTTTATAATTTATAA
1 TTTTAAATAATTTTTATAATTTATAA
1792310 AATTACACTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 7 0.29
27 17 0.71
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (26 bp):
TTTTAAATAATTTTTATAATTTATAA
Found at i:1794496 original size:43 final size:45
Alignment explanation
Indices: 1794430--1794556 Score: 129
Period size: 45 Copynumber: 2.9 Consensus size: 45
1794420 TTTTCTCAAA
* **
1794430 TCACTGGCATT-TAGCCTGTTAGGCTCG-AGGCCCGATATCAGT-T-
1 TCACCGGCATTATAGCCTACTAGGCTCGAAGGCCCGA-AT-AGTATC
1794473 T-ACCGGCATTATAGCCTACTAGGCTCGAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTACTAGGCTCGAAGGCCCGAATAGTATC
** * * *
1794517 TCACCGGCATTATAGTTTGCTAAGCTCAAAGGCCCGAATA
1 TCACCGGCATTATAGCCTACTAGGCTCGAAGGCCCGAATA
1794557 ATCAAGTCAA
Statistics
Matches: 71, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
42 11 0.15
43 18 0.25
44 9 0.13
45 33 0.46
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTACTAGGCTCGAAGGCCCGAATAGTATC
Found at i:1794935 original size:43 final size:43
Alignment explanation
Indices: 1794887--1795009 Score: 196
Period size: 43 Copynumber: 2.9 Consensus size: 43
1794877 CGGCATTACG
1794887 CCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACGAAA
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACGAAA
* * *
1794930 CCTGCTAGGCATGAAGGCCCGAATACACATCACCGGCACGAAG
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACGAAA
*
1794973 CCTGCTAGGCACGAAGGCCCGAATATA-AT-ACCAGCAC
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCAC
1795010 TAGGCCTGCG
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
41 7 0.09
42 2 0.03
43 65 0.88
ACGTcount: A:0.33, C:0.33, G:0.23, T:0.11
Consensus pattern (43 bp):
CCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACGAAA
Found at i:1795038 original size:38 final size:38
Alignment explanation
Indices: 1794990--1795191 Score: 296
Period size: 38 Copynumber: 5.3 Consensus size: 38
1794980 GGCACGAAGG
* * * * *
1794990 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTACGGGATTTAA
*
1795028 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTACGGGATTTAA
** *
1795066 CCCGGATATTTTACCAGCACGAAGCCTACGGGTCTTTAA
1 CCCGGATATAATACCAGCACGAAGCCTACGGG-ATTTAA
*
1795105 GCCCGGATATAATACCAGCACGAAGCCTATGGGATTTAA
1 -CCCGGATATAATACCAGCACGAAGCCTACGGGATTTAA
1795144 CCCGGATATAATACCAGCACGAAGCCTACGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTACGGGATTTAA
1795182 CCCGGATATA
1 CCCGGATATA
1795192 CATCGAATAT
Statistics
Matches: 149, Mismatches: 13, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
38 110 0.74
39 10 0.07
40 29 0.19
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.21
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTACGGGATTTAA
Found at i:1795118 original size:78 final size:76
Alignment explanation
Indices: 1794990--1795191 Score: 296
Period size: 78 Copynumber: 2.6 Consensus size: 76
1794980 GGCACGAAGG
* * * * *
1794990 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTATCCCGGATATAATACCAGCACGAAGCCT
1 CCCGGATATAATACCAGCACGAAGCCTACGGGATTTAACCCGGATATAATACCAGCACGAAGCCT
*
1795055 GCGGGATTTAA
66 ACGGGATTTAA
** *
1795066 CCCGGATATTTTACCAGCACGAAGCCTACGGGTCTTTAAGCCCGGATATAATACCAGCACGAAGC
1 CCCGGATATAATACCAGCACGAAGCCTACGGG-ATTTAA-CCCGGATATAATACCAGCACGAAGC
*
1795131 CTATGGGATTTAA
64 CTACGGGATTTAA
1795144 CCCGGATATAATACCAGCACGAAGCCTACGGGATTTAACCCGGATATA
1 CCCGGATATAATACCAGCACGAAGCCTACGGGATTTAACCCGGATATA
1795192 CATCGAATAT
Statistics
Matches: 111, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
76 36 0.32
77 9 0.08
78 66 0.59
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.21
Consensus pattern (76 bp):
CCCGGATATAATACCAGCACGAAGCCTACGGGATTTAACCCGGATATAATACCAGCACGAAGCCT
ACGGGATTTAA
Found at i:1800750 original size:73 final size:73
Alignment explanation
Indices: 1800657--1800804 Score: 167
Period size: 72 Copynumber: 2.0 Consensus size: 73
1800647 GACTAAAAAC
*
1800657 ATTATTATAAAACTTCTTTATACT-CACAAATACTTTAAAAAAATCCATAACCACAAAATATAAA
1 ATTATTATAAAACGTCTTTATA-TGCACAAATAC-TTAAAAAAATCCATAACCACAAAAT-TAAA
*
1800721 AAGAATCCCAA
63 AAAAATCCCAA
* * ** * * *
1800732 ATTA-TATAAAA-GTCTTTATATGCGCAACTACTTATGAAAATTCATAACCACCATATTAAAAAA
1 ATTATTATAAAACGTCTTTATATGCACAAATACTTAAAAAAATCCATAACCACAAAATTAAAAAA
1800795 AATCCCAA
66 AATCCCAA
1800803 AT
1 AT
1800805 ATTTTAATTT
Statistics
Matches: 63, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
71 16 0.25
72 21 0.33
73 15 0.24
74 7 0.11
75 4 0.06
ACGTcount: A:0.49, C:0.18, G:0.03, T:0.29
Consensus pattern (73 bp):
ATTATTATAAAACGTCTTTATATGCACAAATACTTAAAAAAATCCATAACCACAAAATTAAAAAA
AATCCCAA
Found at i:1803611 original size:15 final size:15
Alignment explanation
Indices: 1803593--1803624 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
1803583 TATTTTATTC
*
1803593 TATTAGGATAATTAT
1 TATTAAGATAATTAT
1803608 TATTAAGATAATTAT
1 TATTAAGATAATTAT
1803623 TA
1 TA
1803625 GGATTATTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.09, T:0.47
Consensus pattern (15 bp):
TATTAAGATAATTAT
Found at i:1808125 original size:18 final size:17
Alignment explanation
Indices: 1808086--1808124 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
1808076 CCTAAAGGTG
*
1808086 ATTTTATCTTCTTTATT
1 ATTTTATCTTATTTATT
1808103 ATTTTACTCTTATTT-TT
1 ATTTTA-TCTTATTTATT
1808120 ATTTT
1 ATTTT
1808125 TTATTTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.18, C:0.10, G:0.00, T:0.72
Consensus pattern (17 bp):
ATTTTATCTTATTTATT
Found at i:1808407 original size:29 final size:29
Alignment explanation
Indices: 1808351--1808407 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
1808341 TCTCTTCTTT
* *
1808351 TTTCATTTATTTTTCGTATTTACCTTAGA
1 TTTCATTTATTTTGCGTATTTAACTTAGA
*
1808380 TTTCATATTATTTTGC-TATTTAATTTAG
1 TTTCAT-TTATTTTGCGTATTTAACTTAG
1808408 CTTTAAATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 16 0.67
30 8 0.33
ACGTcount: A:0.23, C:0.11, G:0.07, T:0.60
Consensus pattern (29 bp):
TTTCATTTATTTTGCGTATTTAACTTAGA
Found at i:1808668 original size:11 final size:11
Alignment explanation
Indices: 1808650--1808679 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
1808640 GTGTATATTG
1808650 TATATATTATA
1 TATATATTATA
*
1808661 TTTATATTATA
1 TATATATTATA
1808672 TATATATT
1 TATATATT
1808680 CTTAATGTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TATATATTATA
Found at i:1812913 original size:12 final size:12
Alignment explanation
Indices: 1812896--1812931 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
1812886 AACATTTTGA
1812896 CATTCATGCATT
1 CATTCATGCATT
1812908 CATTCATGCATT
1 CATTCATGCATT
*
1812920 CATTCATACATT
1 CATTCATGCATT
1812932 GCATATCCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.28, C:0.25, G:0.06, T:0.42
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:1821508 original size:72 final size:72
Alignment explanation
Indices: 1821386--1821761 Score: 406
Period size: 72 Copynumber: 5.2 Consensus size: 72
1821376 AAGCCTTTTT
* * * * * *
1821386 ATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTCGAACCTCAGGTCACGCTGAGGT
1 ATTTTTGTGTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT
1821451 ATTTTCA
66 ATTTTCA
* **
1821458 ATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT
1 ATTTTTGTGTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT
*
1821523 AATTTCA
66 ATTTTCA
* ** * * * * *
1821530 ATTTCTGTTGTCAAAAAAATCAACTCGTATTGCAAGCGGCGAGTTGAGCCTCAGGTCACACGCCG
1 ATTTTTG-TGT-TTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTG
1821595 AGGTATTTTCA
62 AGGTATTTTCA
*
1821606 A-TTTT-TG---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGT
1 ATTTTTGTGTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT
*
1821666 AATTTCA
66 ATTTTCA
* * ** * *
1821673 ATTTCTGT-TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 ATTTTTGTGTTT-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
1821737 TATTTTCA
65 TATTTTCA
*
1821745 ATTTCTGT-TTTCAAAAA
1 ATTTTTGTGTTT-AAAAA
1821762 AAAAAAAAAT
Statistics
Matches: 256, Mismatches: 38, Indels: 20
0.82 0.12 0.06
Matches are distributed among these distances:
67 18 0.07
68 3 0.01
69 37 0.14
72 138 0.54
73 5 0.02
74 34 0.13
75 3 0.01
76 18 0.07
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (72 bp):
ATTTTTGTGTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT
ATTTTCA
Found at i:1821656 original size:143 final size:142
Alignment explanation
Indices: 1821399--1821748 Score: 456
Period size: 143 Copynumber: 2.5 Consensus size: 142
1821389 TTTGTTTTTC
* * *
1821399 AAAATCAACTCATATTGCTAGAGGTGAGTCGAACCTCAGGT-CACGCTGAGGTATTTTCAATTTT
1 AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGTACACGCTGAGGTATTTTCAA-TTT
* **
1821463 TGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTT
65 TGTG--TAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTT
1821528 CAATTTCTGTTGTCAAA
128 CAATTTCTGTTGTC--A
* * * *
1821545 AAAATCAACTCGTATTGCAAGCGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGT-ACACGCTGAGGTATTTTCAATTT
*
1821610 T-TG-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCA
65 TGTGTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCA
*
1821673 ATTTCTGTTTTCA
130 ATTTCTGTTGTCA
* * ** * *
1821686 AAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG-ACACGTTGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGTACACGCTGAGGTATTTTCAATTT
1821749 CTGTTTTCAA
Statistics
Matches: 180, Mismatches: 22, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
139 21 0.12
141 33 0.18
143 67 0.37
146 37 0.21
147 4 0.02
148 18 0.10
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (142 bp):
AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGTACACGCTGAGGTATTTTCAATTTT
GTGTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAA
TTTCTGTTGTCA
Found at i:1822870 original size:18 final size:17
Alignment explanation
Indices: 1822831--1822869 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
1822821 CCTAAAGGTG
*
1822831 ATTTTATCTTCTTTATT
1 ATTTTATCTTATTTATT
1822848 ATTTTACTCTTATTT-TT
1 ATTTTA-TCTTATTTATT
1822865 ATTTT
1 ATTTT
1822870 TTATTTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.18, C:0.10, G:0.00, T:0.72
Consensus pattern (17 bp):
ATTTTATCTTATTTATT
Found at i:1823151 original size:29 final size:29
Alignment explanation
Indices: 1823095--1823151 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
1823085 TCTCTTCTTT
* *
1823095 TTTCATTTATTTTTCGTATTTACCTTAGA
1 TTTCATTTATTTTGCGTATTTAACTTAGA
*
1823124 TTTCATATTATTTTGC-TATTTAATTTAG
1 TTTCAT-TTATTTTGCGTATTTAACTTAG
1823152 CTTTAAATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 16 0.67
30 8 0.33
ACGTcount: A:0.23, C:0.11, G:0.07, T:0.60
Consensus pattern (29 bp):
TTTCATTTATTTTGCGTATTTAACTTAGA
Found at i:1832840 original size:6 final size:6
Alignment explanation
Indices: 1832829--1832864 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
1832819 ACTTCAGTCA
1832829 AAGCAT AAGCAT AAGCAT AAGCAT AAGCAT AAGCAT
1 AAGCAT AAGCAT AAGCAT AAGCAT AAGCAT AAGCAT
1832865 GAAATGGAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.50, C:0.17, G:0.17, T:0.17
Consensus pattern (6 bp):
AAGCAT
Found at i:1835404 original size:11 final size:11
Alignment explanation
Indices: 1835388--1835423 Score: 72
Period size: 11 Copynumber: 3.3 Consensus size: 11
1835378 TTGCAGGGAC
1835388 TCATAATTGAA
1 TCATAATTGAA
1835399 TCATAATTGAA
1 TCATAATTGAA
1835410 TCATAATTGAA
1 TCATAATTGAA
1835421 TCA
1 TCA
1835424 ACTAAATCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.44, C:0.11, G:0.08, T:0.36
Consensus pattern (11 bp):
TCATAATTGAA
Found at i:1841974 original size:17 final size:16
Alignment explanation
Indices: 1841933--1841975 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 16
1841923 TAATTTGTTC
1841933 CTTA-ATTTTTTTTTT
1 CTTATATTTTTTTTTT
* *
1841948 CTTTTCTTTTTTTTCTT
1 CTTATATTTTTTTT-TT
1841965 CTTATATTTTT
1 CTTATATTTTT
1841976 CCTAAAATTC
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 3 0.14
16 8 0.36
17 11 0.50
ACGTcount: A:0.09, C:0.12, G:0.00, T:0.79
Consensus pattern (16 bp):
CTTATATTTTTTTTTT
Found at i:1842764 original size:21 final size:20
Alignment explanation
Indices: 1842738--1842787 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
1842728 ATTTGAATCG
1842738 ATATTTATTTTTATTTAATT
1 ATATTTATTTTTATTTAATT
** *
1842758 AATATTTAAATTTATTTTATT
1 -ATATTTATTTTTATTTAATT
1842779 -TATTTATTT
1 ATATTTATTT
1842788 AATAGTGAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
19 7 0.29
21 17 0.71
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (20 bp):
ATATTTATTTTTATTTAATT
Found at i:1842783 original size:30 final size:30
Alignment explanation
Indices: 1842747--1842806 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
1842737 GATATTTATT
* * *
1842747 TTTATTTAATTAATATTTAAATTTATTTTA
1 TTTATTTAATTAATAGTGAAAATTATTTTA
*
1842777 TTTATTTATTTAATAGTGAAAATTATTTTA
1 TTTATTTAATTAATAGTGAAAATTATTTTA
1842807 AAAATTTATA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (30 bp):
TTTATTTAATTAATAGTGAAAATTATTTTA
Found at i:1844380 original size:13 final size:13
Alignment explanation
Indices: 1844362--1844386 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1844352 CCACCGTGCG
1844362 CGGTGGCCGGCGA
1 CGGTGGCCGGCGA
1844375 CGGTGGCCGGCG
1 CGGTGGCCGGCG
1844387 GAGGCGGATG
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:0.04, C:0.32, G:0.56, T:0.08
Consensus pattern (13 bp):
CGGTGGCCGGCGA
Found at i:1845164 original size:24 final size:24
Alignment explanation
Indices: 1845108--1845164 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
1845098 TATTTTCATG
* *
1845108 ATTATTATTGTGTTTATTTTTACT
1 ATTATTATTGTATTTATTATTACT
* *
1845132 ACTATTATTGTATTTATTATTAGT
1 ATTATTATTGTATTTATTATTACT
*
1845156 ATTAGTATT
1 ATTATTATT
1845165 ATAATTACTA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.26, C:0.04, G:0.09, T:0.61
Consensus pattern (24 bp):
ATTATTATTGTATTTATTATTACT
Found at i:1845382 original size:23 final size:22
Alignment explanation
Indices: 1845356--1845430 Score: 64
Period size: 23 Copynumber: 3.2 Consensus size: 22
1845346 AATGTGTATG
1845356 TATTATATATATTTTTAATACTA
1 TATTATATATATTTTTAATA-TA
1845379 TATTATGTATATATTATATT-ATATA
1 TATTA--TATATATT-T-TTAATATA
*
1845404 TATT-TATTATATTTTTATGTATA
1 TATTATA-TATATTTTTA-ATATA
1845427 TATT
1 TATT
1845431 TTTAATATCA
Statistics
Matches: 44, Mismatches: 1, Indels: 14
0.75 0.02 0.24
Matches are distributed among these distances:
21 2 0.05
22 3 0.07
23 19 0.43
25 14 0.32
26 4 0.09
27 2 0.05
ACGTcount: A:0.36, C:0.01, G:0.03, T:0.60
Consensus pattern (22 bp):
TATTATATATATTTTTAATATA
Found at i:1845405 original size:25 final size:24
Alignment explanation
Indices: 1845361--1845434 Score: 71
Period size: 25 Copynumber: 3.0 Consensus size: 24
1845351 GTATGTATTA
1845361 TATATATTT-TTA-ATACTATATTAT
1 TATATATTTATTATATA-TAT-TTAT
1845385 GTATATATTATATTATATATATTTAT
1 -TATATATT-TATTATATATATTTAT
* *
1845411 TATATTTTTATGTATATATTTTTA
1 TATATATTTAT-TATATATATTTA
1845435 ATATCACATT
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
24 3 0.07
25 26 0.60
26 5 0.12
27 6 0.14
28 3 0.07
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.61
Consensus pattern (24 bp):
TATATATTTATTATATATATTTAT
Found at i:1845413 original size:18 final size:18
Alignment explanation
Indices: 1845356--1845416 Score: 61
Period size: 18 Copynumber: 3.2 Consensus size: 18
1845346 AATGTGTATG
1845356 TATTATATATATTT-TTAA
1 TATTATATATATTTATT-A
* *
1845374 TACTATATTATGTATATATTA
1 TA-T-TA-TATATATTTATTA
1845395 TATTATATATATTTATTA
1 TATTATATATATTTATTA
1845413 TATT
1 TATT
1845417 TTTATGTATA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
18 17 0.49
19 3 0.09
20 3 0.09
21 10 0.29
22 2 0.06
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (18 bp):
TATTATATATATTTATTA
Found at i:1845422 original size:37 final size:39
Alignment explanation
Indices: 1845356--1845430 Score: 111
Period size: 39 Copynumber: 2.0 Consensus size: 39
1845346 AATGTGTATG
1845356 TATTATATATATTTTTAATACTATATTATGTATATATTA
1 TATTATATATATTTTTAATACTATATTATGTATATATTA
*
1845395 TATTATATATATTTATT-ATA-T-TTTTATGTATATATT
1 TATTATATATATTT-TTAATACTATATTATGTATATATT
1845431 TTTAATATCA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
37 14 0.41
38 1 0.03
39 17 0.50
40 2 0.06
ACGTcount: A:0.36, C:0.01, G:0.03, T:0.60
Consensus pattern (39 bp):
TATTATATATATTTTTAATACTATATTATGTATATATTA
Found at i:1845608 original size:3 final size:3
Alignment explanation
Indices: 1845602--1845700 Score: 91
Period size: 3 Copynumber: 34.0 Consensus size: 3
1845592 TTTATTCATA
* * * *
1845602 TAT TAT TAT CAT TAT T-T TCT ATGT TA- TAT TAT TAT CAT TAT T-T
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT
* *
1845645 TCT ATGT TA- TAT TAT TAT TAT TAT TA- TAT TAT TAT TAT TAT TAT
1 TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1845689 TAT TAT TAT TAT
1 TAT TAT TAT TAT
1845701 CATCATCATT
Statistics
Matches: 81, Mismatches: 8, Indels: 14
0.79 0.08 0.14
Matches are distributed among these distances:
2 10 0.12
3 67 0.83
4 4 0.05
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:1845631 original size:26 final size:26
Alignment explanation
Indices: 1845600--1845695 Score: 131
Period size: 26 Copynumber: 3.7 Consensus size: 26
1845590 TCTTTATTCA
1845600 TATATTATTATCATTATTTTCTATGT
1 TATATTATTATCATTATTTTCTATGT
1845626 TATATTATTATCATTATTTTCTATGT
1 TATATTATTATCATTATTTTCTATGT
* * * *
1845652 TATATTATTATTATTATTATAT-TAT
1 TATATTATTATCATTATTTTCTATGT
*
1845677 TATTATTATTATTATTATT
1 TA-TATTATTATCATTATT
1845696 ATTATCATCA
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
25 4 0.06
26 61 0.94
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (26 bp):
TATATTATTATCATTATTTTCTATGT
Found at i:1848867 original size:30 final size:30
Alignment explanation
Indices: 1848831--1848894 Score: 128
Period size: 30 Copynumber: 2.1 Consensus size: 30
1848821 CTCATTATAA
1848831 GAAGAGAGTTCGGGAGTTATCGGATGCTTG
1 GAAGAGAGTTCGGGAGTTATCGGATGCTTG
1848861 GAAGAGAGTTCGGGAGTTATCGGATGCTTG
1 GAAGAGAGTTCGGGAGTTATCGGATGCTTG
1848891 GAAG
1 GAAG
1848895 CAAACTTGTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.25, C:0.09, G:0.41, T:0.25
Consensus pattern (30 bp):
GAAGAGAGTTCGGGAGTTATCGGATGCTTG
Found at i:1860205 original size:53 final size:53
Alignment explanation
Indices: 1860064--1860214 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
1860054 ACAAGTGTGC
* **
1860064 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
*
1860117 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* *
1860170 CCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
1860215 ACCGTGTAAG
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
Found at i:1867659 original size:44 final size:44
Alignment explanation
Indices: 1867595--1867949 Score: 514
Period size: 44 Copynumber: 8.1 Consensus size: 44
1867585 GATAGAAGAT
1867595 GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
1867639 TATTTGGCATCTCTGTAGCGGCGGAGAGCAGATAGAAGATAACA
1 GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
1867683 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAAGA
1 GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
** * * * *
1867727 GATTTTCCATTTCTGCAGCGGCGTAGAGCAGATCAAAGATAACA
1 GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1867771 GATTTGG-AGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCA-TCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
1867815 AATTTGGCATCTCCGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* ** * *
1867859 GATTTGGCGTCTCTAAAGCAGCGGAGAGCAGATTGAAGATAACA
1 GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
1867903 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAAATAACA
1 GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1867947 GAT
1 GAT
1867950 CGGTGTTCCT
Statistics
Matches: 274, Mismatches: 35, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
43 1 0.00
44 272 0.99
45 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.30, T:0.21
Consensus pattern (44 bp):
GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
Found at i:1867722 original size:88 final size:88
Alignment explanation
Indices: 1867547--1867949 Score: 573
Period size: 88 Copynumber: 4.6 Consensus size: 88
1867537 TCCTTGAAAC
* *
1867547 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATAGAAGAT----GATTTGGCATCTC
1 AGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATAGAAGATAACAGATTTGGCGTCTC
1867608 TGTAGCGGCGGAGAGCAGATCGA
66 TGTAGCGGCGGAGAGCAGATCGA
*
1867631 AGATAACATATTTGGCATCTCTGTAGCGGCGGAGAGCAGATAGAAGATAACAGATTTGGCGTCTC
1 AGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATAGAAGATAACAGATTTGGCGTCTC
1867696 TGTAGCGGCGGAGAGCAGATCGA
66 TGTAGCGGCGGAGAGCAGATCGA
* ** * * * *
1867719 AGATAAGAGATTTTCCATTTCTGCAGCGGCGTAGAGCAGATCA-AAGATAACAGATTTGGAGTCT
1 AGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGAT-AGAAGATAACAGATTTGGCGTCT
1867783 CTGTAGCGGCGGAGAGCAGATCGA
65 CTGTAGCGGCGGAGAGCAGATCGA
* * *
1867807 AGATAACAAATTTGGCATCTCCGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTC
1 AGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATAGAAGATAACAGATTTGGCGTCTC
** * *
1867872 TAAAGCAGCGGAGAGCAGATTGA
66 TGTAGCGGCGGAGAGCAGATCGA
* * * *
1867895 AGATAACAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAAATAACAGAT
1 AGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATAGAAGATAACAGAT
1867950 CGGTGTTCCT
Statistics
Matches: 283, Mismatches: 30, Indels: 8
0.88 0.09 0.02
Matches are distributed among these distances:
84 46 0.16
88 236 0.83
89 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.31, T:0.21
Consensus pattern (88 bp):
AGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATAGAAGATAACAGATTTGGCGTCTC
TGTAGCGGCGGAGAGCAGATCGA
Found at i:1867789 original size:132 final size:131
Alignment explanation
Indices: 1867547--1867949 Score: 571
Period size: 132 Copynumber: 3.1 Consensus size: 131
1867537 TCCTTGAAAC
*
1867547 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATAGAAGAT---GATTTGGCATCTCT
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAAAGATTTGGCATCTCT
* * *
1867609 GTAGCGGCGGAGAGCAGATCGAAGATAACATATTTGGCA-TCTCTGTAGCGGCGGAGAGCAGATA
66 GAAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGG-AGTCTCTGTAGCGGCGGAGAGCAGATC
1867673 GA
130 GA
** *
1867675 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAAGAGATTTTCCATTTC
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAA-AGATTTGGCATCTC
* * *
1867740 TGCAGCGGCGTAGAGCAGATCAAAGATAACAGATTTGGAGTCTCTGTAGCGGCGGAGAGCAGATC
65 TGAAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGAGTCTCTGTAGCGGCGGAGAGCAGATC
1867805 GA
130 GA
* * * *
1867807 AGATAACAAATTTGGCATCTCCGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTC
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAA-AGATTTGGCATCTC
* * * * *
1867872 TAAAGCAGCGGAGAGCAGATTGAAGATAACAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATC
65 TGAAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGAGTCTCTGTAGCGGCGGAGAGCAGATC
1867937 GA
130 GA
*
1867939 AAATAACAGAT
1 AGATAACAGAT
1867950 CGGTGTTCCT
Statistics
Matches: 243, Mismatches: 27, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
128 47 0.19
131 1 0.00
132 195 0.80
ACGTcount: A:0.31, C:0.17, G:0.31, T:0.21
Consensus pattern (131 bp):
AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAAAGATTTGGCATCTCT
GAAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGAGTCTCTGTAGCGGCGGAGAGCAGATCG
A
Found at i:1869529 original size:24 final size:24
Alignment explanation
Indices: 1869473--1869529 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
1869463 TATTTTCATG
* *
1869473 ATTATTATTGTGTTTATTTTTACT
1 ATTATTATTGTATTTATTATTACT
* *
1869497 ACTATTATTGTATTTATTATTAGT
1 ATTATTATTGTATTTATTATTACT
*
1869521 ATTAGTATT
1 ATTATTATT
1869530 ATAATTACTA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.26, C:0.04, G:0.09, T:0.61
Consensus pattern (24 bp):
ATTATTATTGTATTTATTATTACT
Found at i:1869737 original size:2 final size:2
Alignment explanation
Indices: 1869730--1869810 Score: 55
Period size: 2 Copynumber: 42.5 Consensus size: 2
1869720 GTGTATGTAT
* * *
1869730 TA TA TA TA TT TT TA -A TA CTA TA T- TA TG TA TA TA TA TA T- TA
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
1869770 TA T- TA TA TA TA TA TA TA TT TA T- TA TA TT TT TA TG TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1869810 T
1 T
1869811 TTTTAATATG
Statistics
Matches: 63, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
1 5 0.08
2 56 0.89
3 2 0.03
ACGTcount: A:0.38, C:0.01, G:0.02, T:0.58
Consensus pattern (2 bp):
TA
Found at i:1869773 original size:20 final size:20
Alignment explanation
Indices: 1869727--1869796 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
1869717 AATGTGTATG
* *
1869727 TATTATA-TATATTTTTA-A
1 TATTATATTATATATATATA
* *
1869745 TACTATATTATGTATATATA
1 TATTATATTATATATATATA
1869765 TATTATATTATATATATATA
1 TATTATATTATATATATATA
1869785 TATT-TATTATAT
1 TATTATATTATAT
1869797 TTTTATGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
18 6 0.14
19 15 0.34
20 23 0.52
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.57
Consensus pattern (20 bp):
TATTATATTATATATATATA
Found at i:1869802 original size:27 final size:28
Alignment explanation
Indices: 1869729--1869811 Score: 91
Period size: 29 Copynumber: 2.9 Consensus size: 28
1869719 TGTGTATGTA
1869729 TTATATATATTTTTA-ATACTATATTATG
1 TTATATATATTTTTATATA-TATATTATG
1869757 TATATATATATTATATTATATATATATATAT-
1 T-TATATATATT-T-TTATATATATAT-TATG
*
1869788 TTAT-TATATTTTTATGTATATATT
1 TTATATATATTTTTATATATATATT
1869812 TTTAATATGA
Statistics
Matches: 49, Mismatches: 1, Indels: 12
0.79 0.02 0.19
Matches are distributed among these distances:
26 1 0.02
27 11 0.22
28 2 0.04
29 16 0.33
30 4 0.08
31 9 0.18
32 6 0.12
ACGTcount: A:0.37, C:0.01, G:0.02, T:0.59
Consensus pattern (28 bp):
TTATATATATTTTTATATATATATTATG
Found at i:1869827 original size:25 final size:23
Alignment explanation
Indices: 1869732--1869850 Score: 100
Period size: 23 Copynumber: 5.0 Consensus size: 23
1869722 GTATGTATTA
1869732 TATATATTTTTAATACTATATTATG
1 TATATATTTTT-ATA-TATATTATG
* *
1869757 TATATATATATTATAT-TATATATA
1 TATATAT-TTTTATATATAT-TATG
*
1869781 TATATATTTATTATAT-TTTTATG
1 TATATATTT-TTATATATATTATG
*
1869804 TATATATTTTTAATATGACATTAT-
1 TATATATTTTT-ATAT-ATATTATG
*
1869828 TCATATATTTTTTTATATATTAT
1 T-ATATATTTTTATATATATTAT
1869851 CCCATGTAAA
Statistics
Matches: 78, Mismatches: 9, Indels: 16
0.76 0.09 0.16
Matches are distributed among these distances:
22 2 0.03
23 26 0.33
24 23 0.29
25 24 0.31
26 3 0.04
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.59
Consensus pattern (23 bp):
TATATATTTTTATATATATTATG
Found at i:1873539 original size:25 final size:25
Alignment explanation
Indices: 1873510--1873559 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
1873500 CTCGAACTTG
*
1873510 ATCTAAATATCCTAAAAAGAAATCA
1 ATCTAAATACCCTAAAAAGAAATCA
1873535 ATCTAAATACCCTAAAAAGAAATCA
1 ATCTAAATACCCTAAAAAGAAATCA
1873560 CTATCATTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.56, C:0.18, G:0.04, T:0.22
Consensus pattern (25 bp):
ATCTAAATACCCTAAAAAGAAATCA
Found at i:1883964 original size:38 final size:38
Alignment explanation
Indices: 1883922--1883996 Score: 123
Period size: 38 Copynumber: 2.0 Consensus size: 38
1883912 TAAGAATCAC
**
1883922 TTTATTTAACGAAGTTTATGAAATGTTGTTTGTTTAAT
1 TTTATTTAACGAAGTTTACAAAATGTTGTTTGTTTAAT
*
1883960 TTTATTTAATGAAGTTTACAAAATGTTGTTTGTTTAA
1 TTTATTTAACGAAGTTTACAAAATGTTGTTTGTTTAA
1883997 AATCAATTGT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.31, C:0.03, G:0.15, T:0.52
Consensus pattern (38 bp):
TTTATTTAACGAAGTTTACAAAATGTTGTTTGTTTAAT
Found at i:1884556 original size:15 final size:16
Alignment explanation
Indices: 1884524--1884563 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
1884514 AGTCCATGTA
1884524 ATTTCAAGTTCAAATT
1 ATTTCAAGTTCAAATT
*
1884540 ATTTCAA-TTCAAGTT
1 ATTTCAAGTTCAAATT
1884555 A-TTCAAGTT
1 ATTTCAAGTT
1884564 TAAAATTTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 5 0.23
15 10 0.45
16 7 0.32
ACGTcount: A:0.35, C:0.12, G:0.07, T:0.45
Consensus pattern (16 bp):
ATTTCAAGTTCAAATT
Found at i:1894996 original size:2 final size:2
Alignment explanation
Indices: 1894989--1895018 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1894979 CACGCTCGTG
1894989 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1895019 AGGCTAGGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1895236 original size:30 final size:28
Alignment explanation
Indices: 1895202--1895264 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
1895192 TTTTTGGATT
*
1895202 TTTTTTTCTATTTCAACTGTTTTTCTTCAA
1 TTTTTTTCTATTTC-ACT-TTTTTCTTAAA
* * *
1895232 TTTTTTTTTGTTTCACTTTTTTTTTAAA
1 TTTTTTTCTATTTCACTTTTTTCTTAAA
1895260 TTTTT
1 TTTTT
1895265 ACTGATGCCG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 14 0.48
29 3 0.10
30 12 0.41
ACGTcount: A:0.14, C:0.11, G:0.03, T:0.71
Consensus pattern (28 bp):
TTTTTTTCTATTTCACTTTTTTCTTAAA
Found at i:1897678 original size:9 final size:9
Alignment explanation
Indices: 1897664--1897728 Score: 58
Period size: 9 Copynumber: 6.8 Consensus size: 9
1897654 AATTAATAAA
1897664 TAAAAATTT
1 TAAAAATTT
*
1897673 TAAAAATTA
1 TAAAAATTT
1897682 TAGAAAATCATT
1 TA-AAAAT--TT
1897694 TAAAAATTAT
1 TAAAAATT-T
* *
1897704 TAAGAATTA
1 TAAAAATTT
1897713 TAAAAATTT
1 TAAAAATTT
*
1897722 AAAAAAT
1 TAAAAAT
1897729 ATTACGAATT
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
9 24 0.53
10 13 0.29
11 5 0.11
12 3 0.07
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (9 bp):
TAAAAATTT
Found at i:1897731 original size:27 final size:27
Alignment explanation
Indices: 1897691--1897742 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
1897681 ATAGAAAATC
*
1897691 ATTTAAAAATTATTAAGAATTATAAAA
1 ATTTAAAAAATATTAAGAATTATAAAA
*
1897718 ATTTAAAAAATATTACGAATTATAA
1 ATTTAAAAAATATTAAGAATTATAA
1897743 GAAAGGTTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.37
Consensus pattern (27 bp):
ATTTAAAAAATATTAAGAATTATAAAA
Found at i:1905150 original size:92 final size:91
Alignment explanation
Indices: 1904995--1905295 Score: 279
Period size: 92 Copynumber: 3.3 Consensus size: 91
1904985 AATTGTAACG
* * * *
1904995 ATTATTATTTATTATATTTCA-TTTCAGGACACTTGGGCTTGAGTATAGTGGTTCAAAAATATTT
1 ATTATTATTTATTATATTTCATTTTCAGGGCACTTGAGCTTGAGTACAGTGGTACAAAAATATTT
* *
1905059 TTAAGATATTCCGTA-AT-GCTTATAAAA
66 TTAAAAT-TTCC-TAGATAAC-TATAAAA
* * *
1905086 ATTATTATTTATTATATTTCATTTTCGGGGCACTTGAGTTTGAGTACGGTGGTACAAAAATATTT
1 ATTATTATTTATTATATTTCATTTTCAGGGCACTTGAGCTTGAGTACAGTGGTACAAAAATATTT
*
1905151 TTAAAATTTTCTAGGATAACTATAAAA
66 TTAAAATTTCCTA-GATAACTATAAAA
* * * * * ***
1905178 GTTATTGTTTATTATATTTCATTTT-TGGGCACTTG-GACTTCAGTATAGTGCCCCAAGAAATAT
1 ATTATTATTTATTATATTTCATTTTCAGGGCACTTGAG-CTTGAGTACAGTGGTACAA-AAATAT
** ** *
1905241 TTTTAATTTTTTTTGAGATAACTGTAAAA
64 TTTTAAAATTTCCT-AGATAACTATAAAA
* *
1905270 ATTATTATTGATTATATTTTATTTTC
1 ATTATTATTTATTATATTTCATTTTC
1905296 GAAGCATTTG
Statistics
Matches: 174, Mismatches: 28, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
90 3 0.02
91 45 0.26
92 124 0.71
93 2 0.01
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (91 bp):
ATTATTATTTATTATATTTCATTTTCAGGGCACTTGAGCTTGAGTACAGTGGTACAAAAATATTT
TTAAAATTTCCTAGATAACTATAAAA
Found at i:1918688 original size:141 final size:141
Alignment explanation
Indices: 1918434--1918713 Score: 438
Period size: 141 Copynumber: 2.0 Consensus size: 141
1918424 TAAATAAGAA
* * *
1918434 TAAGTTTGCATAGGTCCACAACCTCTATCAGTTTCGACTATTAGTAATGAAAGGGGCCTTTCGCC
1 TAAGTTTGCATAGGTCCAAAACCCCTATCAGTTTCGACTATTAGTAATGAAAGGGGCCTGTCGCC
** * *
1918499 AAGTTTATCCTAACTCTGAGCTTGAGGACAAGCTTTTTCTCTAGCAAGGGAGTAATATTATGGGC
66 AAGTTTATCCTAACTCCAAGCTTGAGGACAAGCTCTTTCTCTAGCAAGGGACTAATATTATGGGC
*
1918564 TGAATCTATAC
131 CGAATCTATAC
1918575 TAAGTTTGTC-TAGGTCCAAAACCCCTATCAGTTTCGACTATTAGTAATGAAAGGGGCCTAGT-G
1 TAAGTTTG-CATAGGTCCAAAACCCCTATCAGTTTCGACTATTAGTAATGAAAGGGGCCT-GTCG
* *
1918638 CCAAGTTTATCCTAACTCCAAGCTTGAGGACAAGCTCTTTCTCTAGCAAGGGACTGATCTTATGG
64 CCAAGTTTATCCTAACTCCAAGCTTGAGGACAAGCTCTTTCTCTAGCAAGGGACTAATATTATGG
1918703 GCCGAATCTAT
129 GCCGAATCTAT
1918714 GTTAGGAAAG
Statistics
Matches: 127, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
141 125 0.98
142 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.31
Consensus pattern (141 bp):
TAAGTTTGCATAGGTCCAAAACCCCTATCAGTTTCGACTATTAGTAATGAAAGGGGCCTGTCGCC
AAGTTTATCCTAACTCCAAGCTTGAGGACAAGCTCTTTCTCTAGCAAGGGACTAATATTATGGGC
CGAATCTATAC
Found at i:1919157 original size:142 final size:142
Alignment explanation
Indices: 1918897--1919308 Score: 576
Period size: 142 Copynumber: 2.9 Consensus size: 142
1918887 AATACATGAG
* * *
1918897 AATAAGTTTGTGTAGGTCCACGACCCCTATCGGTTTTGACAATTAGTAATGGAAGGGACCTTTCG
1 AATAAGTTTGTGTAGGTCCACGACCCCTATCGGTTTCGACTATTAGTAACGGAAGGGACCTTTCG
** * * *
1918962 -CACAAGTTTATTGTAACTCTGAGCTTGAGGACAAGCTCTTTCTCTAGCGAGGGAGTAAAATTAT
66 CCA-AAGTTTATCATAACTCCGAGCTTGAGGACAAGCTCTTTCTCTAGCAAGGGAGTAATATTAT
*
1919026 GCGCCAAATCTAT
130 GAGCCAAATCTAT
* * * * * *
1919039 AATAAGTTTGTTTAAGTCTACAACCCCTATCGGTTTCAACTATTAGTAACGGAAGGGACCTTTTG
1 AATAAGTTTGTGTAGGTCCACGACCCCTATCGGTTTCGACTATTAGTAACGGAAGGGACCTTTCG
* * *
1919104 CCAAAGTTCATCATAGCTCCGAGCTTGAGGACAAGCTCTTTCTCTAGTAAGGGAGTAATATTATG
66 CCAAAGTTTATCATAACTCCGAGCTTGAGGACAAGCTCTTTCTCTAGCAAGGGAGTAATATTATG
*
1919169 AGCCGAATCTAT
131 AGCCAAATCTAT
* *
1919181 AATAAGTTTGTGTAGGTCCATGACCCCTATCGGTTTCGACTATTAGTAACGAAAGGGACCTTTCG
1 AATAAGTTTGTGTAGGTCCACGACCCCTATCGGTTTCGACTATTAGTAACGGAAGGGACCTTTCG
* * * *
1919246 CC-AAGTTTATCTTAACTCCAAGCTTGAGGACAAGCTCGTTCTCTAGCAAGGTAGTAATATTAT
66 CCAAAGTTTATCATAACTCCGAGCTTGAGGACAAGCTCTTTCTCTAGCAAGGGAGTAATATTAT
1919309 CGGCCGAATC
Statistics
Matches: 235, Mismatches: 34, Indels: 3
0.86 0.12 0.01
Matches are distributed among these distances:
141 54 0.23
142 179 0.76
143 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.31
Consensus pattern (142 bp):
AATAAGTTTGTGTAGGTCCACGACCCCTATCGGTTTCGACTATTAGTAACGGAAGGGACCTTTCG
CCAAAGTTTATCATAACTCCGAGCTTGAGGACAAGCTCTTTCTCTAGCAAGGGAGTAATATTATG
AGCCAAATCTAT
Found at i:1919759 original size:141 final size:141
Alignment explanation
Indices: 1919505--1920200 Score: 892
Period size: 141 Copynumber: 5.0 Consensus size: 141
1919495 GGTGCTAATA
* ** * * * *
1919505 AATAAATTTGTGTAGGTCCATGACCCCCATTAGTCTCGACTATTAGTAATGAAAGGGACCTTTCA
1 AATAAGTTTGTGTAGGTCCACAACCCCTATCAGTTTCAACTATTAGTAATGAAAGGGACCTTTCA
*
1919570 CCAAGTTTATCCTAACTCCAAGCTTGAGGACAAGCTCTTTCTCTAGCAAGGGAGTAATATTATGG
66 CCAAGTTTATCCTAACTCCGAGCTTGAGGACAAGCTCTTTCTCTAGCAAGGGAGTAATATTATGG
**
1919635 GTTGAATCTAT
131 GCCGAATCTAT
* * * *
1919646 AATAAGTTTGTATAGGTCCACAACCCCTATCGGTTTCAACTATTAGCAATGGAAGGGACCTTTCA
1 AATAAGTTTGTGTAGGTCCACAACCCCTATCAGTTTCAACTATTAGTAATGAAAGGGACCTTTCA
* * **
1919711 CCATGTTTACCCTAACTCTAAGCTTGAGGACAAGCTCTTTCTCTAGCAAGGGAGTAATATTATGG
66 CCAAGTTTATCCTAACTCCGAGCTTGAGGACAAGCTCTTTCTCTAGCAAGGGAGTAATATTATGG
1919776 GCCGAATCTAT
131 GCCGAATCTAT
* * *
1919787 AACAAGTTTGTGTAGGTCCA-AGACCCATATCAGTTTCAAC---T--TAATG-AGGGGACCTTTC
1 AATAAGTTTGTGTAGGTCCACA-ACCCCTATCAGTTTCAACTATTAGTAATGAAAGGGACCTTTC
* * * * *
1919845 TCCAAGTTTATCCTAGCTCCGAGCTTGAGGATAAGCTTTTTCTCTAGCAAGGGAGTGATATTATG
65 ACCAAGTTTATCCTAACTCCGAGCTTGAGGACAAGCTCTTTCTCTAGCAAGGGAGTAATATTATG
1919910 GGCCGAATCTAT
130 GGCCGAATCTAT
* * *
1919922 AATAAGTTTGGGTAGGTCCACAA-CCCTATCAGTTTCAACTATTAGTAATGAAAGGGGCCTTTCG
1 AATAAGTTTGTGTAGGTCCACAACCCCTATCAGTTTCAACTATTAGTAATGAAAGGGACCTTTCA
* * *
1919986 CCAAGTTTATCCTAACTCCGAGCTTGAGGACAAGCTCTTACTCTAGCAAGGGAGTAAGATTATGA
66 CCAAGTTTATCCTAACTCCGAGCTTGAGGACAAGCTCTTTCTCTAGCAAGGGAGTAATATTATGG
*
1920051 GCCAAATCTAT
131 GCCGAATCTAT
* * * ** * * *
1920062 TATAAGTTTGTGTAGGTCCACAACCCTTATCGGTTTCGCCTATTAGTAA-CAAGGGGACCTTTCC
1 AATAAGTTTGTGTAGGTCCACAACCCCTATCAGTTTCAACTATTAGTAATGAAAGGGACCTTTCA
* * * *
1920126 CCAAGTTTATCCTAACCCCGAG-TTCGAGGACAAGTTCTTTCTCTAGCAAGGGAGTGA-CTTATG
66 CCAAGTTTATCCTAACTCCGAGCTT-GAGGACAAGCTCTTTCTCTAGCAAGGGAGTAATATTATG
1920189 GGCCGAATCTAT
130 GGCCGAATCTAT
1920201 GTTAGGAAAG
Statistics
Matches: 483, Mismatches: 62, Indels: 22
0.85 0.11 0.04
Matches are distributed among these distances:
134 15 0.03
135 98 0.20
136 5 0.01
137 1 0.00
138 1 0.00
139 22 0.05
140 161 0.33
141 180 0.37
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (141 bp):
AATAAGTTTGTGTAGGTCCACAACCCCTATCAGTTTCAACTATTAGTAATGAAAGGGACCTTTCA
CCAAGTTTATCCTAACTCCGAGCTTGAGGACAAGCTCTTTCTCTAGCAAGGGAGTAATATTATGG
GCCGAATCTAT
Found at i:1921656 original size:13 final size:12
Alignment explanation
Indices: 1921638--1921667 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
1921628 CACCTTTTCC
1921638 TTTTTCTTTTCTT
1 TTTTTCTTTT-TT
1921651 TTTTTCTTTTTT
1 TTTTTCTTTTTT
1921663 TTTTT
1 TTTTT
1921668 AAAAAAAGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.41
13 10 0.59
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (12 bp):
TTTTTCTTTTTT
Found at i:1928833 original size:129 final size:121
Alignment explanation
Indices: 1928530--1928835 Score: 361
Period size: 118 Copynumber: 2.5 Consensus size: 121
1928520 ATTTAATAAT
* * *
1928530 TTACGTGTTTTAATTATATTCCACGTCACAATCAAAATAACATTTAATACTCAAATCTAACTTTT
1 TTACGTGTTTTAATTATATTCCACGTCACATTCAAAATAACATTTAATACTCGAATTTAACTTTT
* *
1928595 GCATGCAGTAAGTCTTCCTCTTTACCAATCATGCCAAAACTTCATTAAATAATTTG
66 ACATGCAGTAAGTCTTCCTCTTTACCAATCATACCAAAACTTCATTAAATAATTTG
* * *
1928651 ---CGTGTTTTAATTATATTCTACGTCACTTTCAAAATAACATTTAGTACTCGAATTTAACTTTT
1 TTACGTGTTTTAATTATATTCCACGTCACATTCAAAATAACATTTAATACTCGAATTTAACTTTT
* * * *
1928713 ACATTTGGTAGGTCTCGAA-TCTTCTTCTTTACCAATCATATC-AAACTTCATTTAATAATTTAC
66 ACA--T-GCA-G--T--AAGTCTTCCTCTTTACCAATCATACCAAAACTTCATTAAATAATTT--
1928776 G
121 G
* *
1928777 TTACGTGTTTTAGTTATATTCCACGTCACATTCAAAATAACATTTAATACCCGAATTTA
1 TTACGTGTTTTAATTATATTCCACGTCACATTCAAAATAACATTTAATACTCGAATTTA
1928836 TGATTAAATT
Statistics
Matches: 155, Mismatches: 17, Indels: 18
0.82 0.09 0.09
Matches are distributed among these distances:
118 58 0.37
120 1 0.01
121 2 0.01
122 1 0.01
124 19 0.12
125 20 0.13
126 3 0.02
129 51 0.33
ACGTcount: A:0.33, C:0.19, G:0.08, T:0.40
Consensus pattern (121 bp):
TTACGTGTTTTAATTATATTCCACGTCACATTCAAAATAACATTTAATACTCGAATTTAACTTTT
ACATGCAGTAAGTCTTCCTCTTTACCAATCATACCAAAACTTCATTAAATAATTTG
Found at i:1930077 original size:21 final size:21
Alignment explanation
Indices: 1930039--1930084 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
1930029 TTGATTGCCA
1930039 AACTAAAAATAATTTAAAAAAT
1 AACTAAAAAT-ATTTAAAAAAT
*
1930061 AACTAAAAAT-TTGTAAAAATT
1 AACTAAAAATATT-TAAAAAAT
1930082 AAC
1 AAC
1930085 CCAATTCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 2 0.09
21 10 0.45
22 10 0.45
ACGTcount: A:0.63, C:0.07, G:0.02, T:0.28
Consensus pattern (21 bp):
AACTAAAAATATTTAAAAAAT
Found at i:1931639 original size:15 final size:15
Alignment explanation
Indices: 1931616--1931647 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
1931606 TGTTTCAATG
1931616 TATTCGATGCTCTAA
1 TATTCGATGCTCTAA
*
1931631 TATTTGATGCTCTAA
1 TATTCGATGCTCTAA
1931646 TA
1 TA
1931648 GTGTAAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.16, G:0.12, T:0.44
Consensus pattern (15 bp):
TATTCGATGCTCTAA
Found at i:1934612 original size:2 final size:2
Alignment explanation
Indices: 1934605--1934633 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1934595 TCAAGTTTGG
1934605 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1934634 TTGTTAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1935794 original size:2 final size:2
Alignment explanation
Indices: 1935787--1935811 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1935777 ATCAAAACTA
1935787 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
1935812 AAGGTATTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1939140 original size:14 final size:15
Alignment explanation
Indices: 1939123--1939167 Score: 56
Period size: 14 Copynumber: 3.0 Consensus size: 15
1939113 AGAAATTTGG
1939123 AATTTAATTAT-TAT
1 AATTTAATTATATAT
*
1939137 AATTTAATTTTATAT
1 AATTTAATTATATAT
*
1939152 AATTTAGTCTATATAT
1 AATTTAAT-TATATAT
1939168 TTTTATAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
14 10 0.38
15 10 0.38
16 6 0.23
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (15 bp):
AATTTAATTATATAT
Found at i:1943856 original size:20 final size:20
Alignment explanation
Indices: 1943826--1943869 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
1943816 AAATCAGCTG
1943826 AAATGATTTTTTCTATTTTTA-
1 AAATGA-TTTTT-TATTTTTAT
1943847 AAAT-ATTTTTTATTTTTAT
1 AAATGATTTTTTATTTTTAT
1943866 AAAT
1 AAAT
1943870 TTTAATAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 8 0.36
19 9 0.41
20 1 0.05
21 4 0.18
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (20 bp):
AAATGATTTTTTATTTTTAT
Found at i:1943860 original size:18 final size:20
Alignment explanation
Indices: 1943833--1943869 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
1943823 CTGAAATGAT
1943833 TTTTTCTATTTTTA-AAATA
1 TTTTTCTATTTTTATAAATA
1943852 TTTTT-TATTTTTATAAAT
1 TTTTTCTATTTTTATAAAT
1943870 TTTAATAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTTTCTATTTTTATAAATA
Found at i:1945317 original size:25 final size:25
Alignment explanation
Indices: 1945289--1945340 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
1945279 TTGTATTTAA
1945289 CAGTTATCCAATTTAATCCACAGCT
1 CAGTTATCCAATTTAATCCACAGCT
1945314 CAGTTATCCAATTTAATCCACAGCT
1 CAGTTATCCAATTTAATCCACAGCT
1945339 CA
1 CA
1945341 AAGATAGGTT
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:0.33, C:0.29, G:0.08, T:0.31
Consensus pattern (25 bp):
CAGTTATCCAATTTAATCCACAGCT
Found at i:1959575 original size:13 final size:14
Alignment explanation
Indices: 1959559--1959600 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
1959549 TTTTAATTTT
1959559 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
1959572 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
1959587 ATTTTAAATAATAT
1 ATTTT-AATAATAT
1959601 TATTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:1959585 original size:16 final size:16
Alignment explanation
Indices: 1959563--1959599 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
1959553 AATTTTATTT
1959563 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
1959580 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
1959595 TAATA
1 TAATA
1959600 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:1968392 original size:17 final size:18
Alignment explanation
Indices: 1968356--1968394 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
1968346 AATAGAAATT
1968356 TATTTTAAAATAAGATAA
1 TATTTTAAAATAAGATAA
*
1968374 TATTTTATAATAA-ATAA
1 TATTTTAAAATAAGATAA
1968391 TATT
1 TATT
1968395 ATATGCAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (18 bp):
TATTTTAAAATAAGATAA
Found at i:1968420 original size:28 final size:28
Alignment explanation
Indices: 1968380--1968437 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
1968370 ATAATATTTT
*
1968380 ATAATAAATAATA-TTATATGCAAAA-TTA
1 ATAATAAACAATAGTTA-AT-CAAAACTTA
1968408 ATAATAAACAATAGTTAATCAAAACTTA
1 ATAATAAACAATAGTTAATCAAAACTTA
1968436 AT
1 AT
1968438 TTAAATTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
27 5 0.19
28 19 0.70
29 3 0.11
ACGTcount: A:0.57, C:0.07, G:0.03, T:0.33
Consensus pattern (28 bp):
ATAATAAACAATAGTTAATCAAAACTTA
Found at i:1968701 original size:77 final size:76
Alignment explanation
Indices: 1968616--1968758 Score: 193
Period size: 77 Copynumber: 1.9 Consensus size: 76
1968606 TATTAAGAAT
* * *
1968616 ATTATTTAAA-ATTTAAAAATATTAATATTAAATAATTTATTA-TATTATTAAAAATA-TATGTT
1 ATTATTTAAATA-TTAAAAAAATTAAAATTAAA-AATTTATTATTAATA-TAAAAATATTATGTT
1968678 TAATGATATTCAAC
63 TAATGATATTCAAC
*
1968692 ATTATTTTAAATATTAAAAAAATTAAAATTAAAAATTTATTATTAATATAATAATATTATGTTTA
1 ATTA-TTTAAATATTAAAAAAATTAAAATTAAAAATTTATTATTAATATAAAAATATTATGTTTA
1968757 AT
65 AT
1968759 TCAAACTAAT
Statistics
Matches: 59, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
76 20 0.34
77 38 0.64
78 1 0.02
ACGTcount: A:0.50, C:0.01, G:0.02, T:0.46
Consensus pattern (76 bp):
ATTATTTAAATATTAAAAAAATTAAAATTAAAAATTTATTATTAATATAAAAATATTATGTTTAA
TGATATTCAAC
Found at i:1976796 original size:15 final size:15
Alignment explanation
Indices: 1976778--1976813 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
1976768 CCCAACCTAA
1976778 CCCAAAA-CCCAGAAG
1 CCCAAAACCCCA-AAG
1976793 CCCAAAACCCCAAAG
1 CCCAAAACCCCAAAG
1976808 CCCAAA
1 CCCAAA
1976814 TCAGAAACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 16 0.80
16 4 0.20
ACGTcount: A:0.47, C:0.44, G:0.08, T:0.00
Consensus pattern (15 bp):
CCCAAAACCCCAAAG
Found at i:1977276 original size:24 final size:25
Alignment explanation
Indices: 1977249--1977297 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
1977239 CTTTTTTTAT
*
1977249 TAAATAAAAAAC-TTTAAAATATAA
1 TAAATAAAAAACATTTAAAACATAA
* *
1977273 TAAATCAAATACATTTAAAACATAA
1 TAAATAAAAAACATTTAAAACATAA
1977298 AAACAAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (25 bp):
TAAATAAAAAACATTTAAAACATAA
Found at i:1977290 original size:25 final size:23
Alignment explanation
Indices: 1977261--1977325 Score: 75
Period size: 25 Copynumber: 2.9 Consensus size: 23
1977251 AATAAAAAAC
*
1977261 TTTAAAATATAATAAATCAAATACA
1 TTTAAAACATAA-AAA-CAAATACA
1977286 TTTAAAACATAAAAACAAAT--A
1 TTTAAAACATAAAAACAAATACA
1977307 -TTAAAACA-AAAAACAAATA
1 TTTAAAACATAAAAACAAATA
1977326 AAAAATAAGA
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
19 10 0.26
20 8 0.21
21 1 0.03
23 5 0.13
24 3 0.08
25 11 0.29
ACGTcount: A:0.66, C:0.09, G:0.00, T:0.25
Consensus pattern (23 bp):
TTTAAAACATAAAAACAAATACA
Found at i:1977320 original size:19 final size:20
Alignment explanation
Indices: 1977287--1977325 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
1977277 TCAAATACAT
1977287 TTAAAACATAAAAACAAATA
1 TTAAAACATAAAAACAAATA
1977307 TTAAAACA-AAAAACAAATA
1 TTAAAACATAAAAACAAATA
1977326 AAAAATAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.72, C:0.10, G:0.00, T:0.18
Consensus pattern (20 bp):
TTAAAACATAAAAACAAATA
Found at i:1979943 original size:40 final size:40
Alignment explanation
Indices: 1979862--1980080 Score: 325
Period size: 40 Copynumber: 5.5 Consensus size: 40
1979852 AAACCAAGTA
* * * *
1979862 CCTTCGGGATTTAG-CCGGATATAGCT-ACTATCTCAACTG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTAGCACAAATG
1979901 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
*
1979941 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
* *
1979981 CCTTCGGGACTTAGCCCGGATATAGTAACTCGTACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
* *
1980021 CCTTCGGGACTTGGCCCGGATAATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGAT-ATAGTAACTAGCACAAATG
1980062 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
1980081 TTATCATCCG
Statistics
Matches: 167, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
39 14 0.08
40 118 0.71
41 35 0.21
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
Found at i:1987866 original size:40 final size:40
Alignment explanation
Indices: 1987796--1987973 Score: 290
Period size: 40 Copynumber: 4.5 Consensus size: 40
1987786 AAACCAAGTA
* * *
1987796 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAACTG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
1987835 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1987875 CCTTCGGGACTTAGCCCGGATATAGTAACT-GCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1987914 CCTTCGGGACTTAGCCCGGATAATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGAT-ATAGTAACTCGCACAAATG
1987955 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
1987974 TTATCATCCG
Statistics
Matches: 132, Mismatches: 3, Indels: 6
0.94 0.02 0.04
Matches are distributed among these distances:
39 44 0.33
40 60 0.45
41 28 0.21
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:1989629 original size:3 final size:3
Alignment explanation
Indices: 1989621--1989661 Score: 57
Period size: 3 Copynumber: 14.0 Consensus size: 3
1989611 TTATATATAT
* *
1989621 TTA TTA TTA TTA -TA TTA TTA CTA TTA TTC TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1989662 AGTATATTTC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:1990111 original size:30 final size:31
Alignment explanation
Indices: 1990075--1990146 Score: 92
Period size: 32 Copynumber: 2.3 Consensus size: 31
1990065 ATATGTATAT
*
1990075 TATATGTATTCTTTTAATA-TGTATTACATA
1 TATATGTATTCTTTTAATATTATATTACATA
* *
1990105 TATATGTATTTTTTTTAATATTATATTATATA
1 TATATGTA-TTCTTTTAATATTATATTACATA
*
1990137 TATATATATT
1 TATATGTATT
1990147 ATTCATATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
30 8 0.22
31 12 0.33
32 16 0.44
ACGTcount: A:0.35, C:0.03, G:0.04, T:0.58
Consensus pattern (31 bp):
TATATGTATTCTTTTAATATTATATTACATA
Found at i:1990181 original size:26 final size:26
Alignment explanation
Indices: 1990115--1990181 Score: 64
Period size: 26 Copynumber: 2.6 Consensus size: 26
1990105 TATATGTATT
* *
1990115 TTTTTTAATATTATATTATATATATA
1 TTTTTTAATATTATATCATATACATA
* * * *
1990141 TATATTATTCA-TATATCATATACATG
1 TTTTTTAAT-ATTATATCATATACATA
1990167 TTTTTTAATATTATA
1 TTTTTTAATATTATA
1990182 CTTTATATAT
Statistics
Matches: 30, Mismatches: 9, Indels: 4
0.70 0.21 0.09
Matches are distributed among these distances:
25 1 0.03
26 28 0.93
27 1 0.03
ACGTcount: A:0.37, C:0.04, G:0.01, T:0.57
Consensus pattern (26 bp):
TTTTTTAATATTATATCATATACATA
Found at i:1992825 original size:11 final size:11
Alignment explanation
Indices: 1992809--1992853 Score: 63
Period size: 11 Copynumber: 3.9 Consensus size: 11
1992799 TAGTTATTTA
1992809 TAATAAAATAT
1 TAATAAAATAT
1992820 TAATAAAATAT
1 TAATAAAATAT
*
1992831 TCCATTAAAATAT
1 T--AATAAAATAT
1992844 TAATAAAATA
1 TAATAAAATA
1992854 ATATTTATCT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
11 20 0.67
13 10 0.33
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (11 bp):
TAATAAAATAT
Found at i:1995183 original size:14 final size:14
Alignment explanation
Indices: 1995164--1995194 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
1995154 AATTTGAATT
1995164 TTAAGTTAATCGAA
1 TTAAGTTAATCGAA
*
1995178 TTAAGTTAGTCGAA
1 TTAAGTTAATCGAA
1995192 TTA
1 TTA
1995195 TTCGAGTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.16, T:0.39
Consensus pattern (14 bp):
TTAAGTTAATCGAA
Found at i:1995386 original size:19 final size:19
Alignment explanation
Indices: 1995344--1995408 Score: 69
Period size: 19 Copynumber: 3.3 Consensus size: 19
1995334 AAAATTACAA
1995344 AAAAATTTAAAATAATTTT
1 AAAAATTTAAAATAATTTT
*
1995363 TAAAATTTAAAAT-ATTTAT
1 AAAAATTTAAAATAATTT-T
*
1995382 AAAAATTTCAGAAATAAATTCT
1 AAAAATTT-A-AAAT-AATTTT
1995404 AAAAA
1 AAAAA
1995409 ATATAAAAGA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
18 4 0.11
19 20 0.53
20 1 0.03
21 4 0.11
22 6 0.16
23 3 0.08
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.37
Consensus pattern (19 bp):
AAAAATTTAAAATAATTTT
Found at i:2001946 original size:10 final size:10
Alignment explanation
Indices: 2001918--2001951 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
2001908 TTTCAATTGC
*
2001918 TAAAAAAAAT
1 TAAAAAAATT
2001928 TAAAAAAATT
1 TAAAAAAATT
*
2001938 TAAAAAAATA
1 TAAAAAAATT
2001948 TAAA
1 TAAA
2001952 TAACAATCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (10 bp):
TAAAAAAATT
Found at i:2007994 original size:19 final size:19
Alignment explanation
Indices: 2007970--2008006 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
2007960 TAATTCCATA
2007970 TTGGAGCACATAAATTTAG
1 TTGGAGCACATAAATTTAG
*
2007989 TTGGAGCACGTAAATTTA
1 TTGGAGCACATAAATTTA
2008007 AAACCATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.11, G:0.22, T:0.32
Consensus pattern (19 bp):
TTGGAGCACATAAATTTAG
Found at i:2009348 original size:24 final size:24
Alignment explanation
Indices: 2009321--2009369 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
2009311 GTCCCTAATT
2009321 AAGTTAGTGTTACGAGTTAATCAG
1 AAGTTAGTGTTACGAGTTAATCAG
2009345 AAGTTAGTGTTACGAGTTAATCAG
1 AAGTTAGTGTTACGAGTTAATCAG
2009369 A
1 A
2009370 CATCAATTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.35, C:0.08, G:0.24, T:0.33
Consensus pattern (24 bp):
AAGTTAGTGTTACGAGTTAATCAG
Found at i:2013382 original size:42 final size:42
Alignment explanation
Indices: 2013326--2013406 Score: 135
Period size: 42 Copynumber: 1.9 Consensus size: 42
2013316 TACAATAATC
* *
2013326 ATTTTATAGTTTTATGAAATTAAGTGACTAAAATATGAACTT
1 ATTTTATAGCTTTATGAAATTAAGTGACCAAAATATGAACTT
*
2013368 ATTTTATAGCTTTATGAAGTTAAGTGACCAAAATATGAA
1 ATTTTATAGCTTTATGAAATTAAGTGACCAAAATATGAA
2013407 TTTACTAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.41, C:0.06, G:0.14, T:0.40
Consensus pattern (42 bp):
ATTTTATAGCTTTATGAAATTAAGTGACCAAAATATGAACTT
Found at i:2024097 original size:26 final size:25
Alignment explanation
Indices: 2024037--2024097 Score: 68
Period size: 26 Copynumber: 2.4 Consensus size: 25
2024027 GAATGTATAA
*
2024037 AAATCTTAAAATAAATAATACTAAAG
1 AAAT-TTAAAATAAATAATACAAAAG
***
2024063 AAGCCTAAAATAAATAAATACAAAAG
1 AAATTTAAAATAAAT-AATACAAAAG
2024089 AAATTTAAA
1 AAATTTAAA
2024098 GGTGAATAAC
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
25 10 0.37
26 17 0.63
ACGTcount: A:0.64, C:0.08, G:0.05, T:0.23
Consensus pattern (25 bp):
AAATTTAAAATAAATAATACAAAAG
Found at i:2024462 original size:25 final size:26
Alignment explanation
Indices: 2024412--2024468 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
2024402 TCAAAATATG
* *
2024412 TAAAAACTTAGAATACATGATGATAA
1 TAAAAACTTAAAATACATAATGATAA
*
2024438 TAAAAATTTAAAATACATAAT-ATAA
1 TAAAAACTTAAAATACATAATGATAA
*
2024463 GAAAAA
1 TAAAAA
2024469 ACAAGCTTTG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
25 9 0.33
26 18 0.67
ACGTcount: A:0.61, C:0.05, G:0.07, T:0.26
Consensus pattern (26 bp):
TAAAAACTTAAAATACATAATGATAA
Found at i:2032358 original size:53 final size:52
Alignment explanation
Indices: 2032283--2032441 Score: 169
Period size: 53 Copynumber: 3.1 Consensus size: 52
2032273 GTACTTCATT
*
2032283 ATCATACCGATGCCATATCCCAGATATGGTCTTATACGGAATCACATTATCAC
1 ATCATACCGATGCCATAACCCAGATATGGTCTTATACGGAATCACA-TATCAC
* * * *
2032336 ATCATACCAATGCCATAACCCAGCTATGGTCTTATATGGGAAT-AGATATCAC
1 ATCATACCGATGCCATAACCCAGATATGGTCTTATA-CGGAATCACATATCAC
*** * * * * *
2032388 ATTGCACCGATGCCATAGCCCAGTTAT-GTCTTATACAGAAGCATATATCAC
1 ATCATACCGATGCCATAACCCAGATATGGTCTTATACGGAATCACATATCAC
2032439 ATC
1 ATC
2032442 TTTTTTTTCA
Statistics
Matches: 88, Mismatches: 16, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
50 3 0.03
51 18 0.20
52 27 0.31
53 35 0.40
54 5 0.06
ACGTcount: A:0.33, C:0.25, G:0.14, T:0.28
Consensus pattern (52 bp):
ATCATACCGATGCCATAACCCAGATATGGTCTTATACGGAATCACATATCAC
Found at i:2040859 original size:5 final size:5
Alignment explanation
Indices: 2040849--2040876 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
2040839 CAATTTGGGG
2040849 ATTTT ATTTT ATTTT ATTTT ATTTT ATT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATT
2040877 CAAAATTACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
ATTTT
Found at i:2042658 original size:11 final size:11
Alignment explanation
Indices: 2042620--2042661 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
2042610 AAATAACAAA
2042620 AAAATAGTAGC
1 AAAATAGTAGC
* * *
2042631 AATATAATAGT
1 AAAATAGTAGC
2042642 AAAATAGTAGC
1 AAAATAGTAGC
2042653 AAAATAGTA
1 AAAATAGTA
2042662 AAAAAACAAC
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.57, C:0.05, G:0.14, T:0.24
Consensus pattern (11 bp):
AAAATAGTAGC
Found at i:2042667 original size:22 final size:22
Alignment explanation
Indices: 2042609--2042667 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 22
2042599 TAAGAGTTAT
*
2042609 AAAATAACAAAAAAATAGTAGC
1 AAAATAATAAAAAAATAGTAGC
* **
2042631 AATATAATAGTAAAATAGTAGC
1 AAAATAATAAAAAAATAGTAGC
*
2042653 AAAATAGTAAAAAAA
1 AAAATAATAAAAAAA
2042668 CAACAAGAAA
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.66, C:0.05, G:0.10, T:0.19
Consensus pattern (22 bp):
AAAATAATAAAAAAATAGTAGC
Found at i:2042700 original size:22 final size:22
Alignment explanation
Indices: 2042653--2042700 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
2042643 AAATAGTAGC
*
2042653 AAAATAGTAAAAAAACAACAAG
1 AAAATAGTAAAAAAACAACAAA
* **
2042675 AAAATAGTAATAAAACAGTAAA
1 AAAATAGTAAAAAAACAACAAA
2042697 AAAA
1 AAAA
2042701 AGTCTTTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.73, C:0.06, G:0.08, T:0.12
Consensus pattern (22 bp):
AAAATAGTAAAAAAACAACAAA
Found at i:2043786 original size:42 final size:42
Alignment explanation
Indices: 2043727--2043811 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
2043717 CAATTTGATG
2043727 ATAGTTCCCATTACTAAGGGAGATAATCATAATCTGTGGTTC
1 ATAGTTCCCATTACTAAGGGAGATAATCATAATCTGTGGTTC
2043769 ATAGTTCCCATTACTAAGGGAGATAATCATAATCTGTGGTTC
1 ATAGTTCCCATTACTAAGGGAGATAATCATAATCTGTGGTTC
2043811 A
1 A
2043812 ATGGCTTCCA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (42 bp):
ATAGTTCCCATTACTAAGGGAGATAATCATAATCTGTGGTTC
Found at i:2049320 original size:57 final size:57
Alignment explanation
Indices: 2049242--2049509 Score: 342
Period size: 57 Copynumber: 4.7 Consensus size: 57
2049232 TTCGTGACGA
* * *
2049242 CATCACTAAACGAATGACCTTTGCCTCCTTCACTTGGACCTGAATTGG-GGTTGACAG
1 CATCACTAAATGCATGACCTTTGCCTCCTGCACTTGGACCTGAATTGGTGG-TGACAG
* * *
2049299 CATCAGTAAATGCATGACCTTTGCCGCCTTCACTTGGACCTGAATTGG-GGTTGACAG
1 CATCACTAAATGCATGACCTTTGCCTCCTGCACTTGGACCTGAATTGGTGG-TGACAG
* * * *
2049356 CATCAGTAAATGCATGACCTTTACCTCCTGGACTTGGACCTGAGTTGGTGGTGACAG
1 CATCACTAAATGCATGACCTTTGCCTCCTGCACTTGGACCTGAATTGGTGGTGACAG
* * * * *
2049413 CATCACTATATGCATGACCTTTGCCACCAGAACTTGGCCCTGAATTGGTGGTGACAG
1 CATCACTAAATGCATGACCTTTGCCTCCTGCACTTGGACCTGAATTGGTGGTGACAG
* * *
2049470 AATCACTAAATGCATGACCTTTGCCTCCTGGACTAGGACC
1 CATCACTAAATGCATGACCTTTGCCTCCTGCACTTGGACC
2049510 ACTGGTTTTG
Statistics
Matches: 186, Mismatches: 24, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
57 184 0.99
58 2 0.01
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (57 bp):
CATCACTAAATGCATGACCTTTGCCTCCTGCACTTGGACCTGAATTGGTGGTGACAG
Found at i:2049411 original size:114 final size:114
Alignment explanation
Indices: 2049208--2049509 Score: 364
Period size: 114 Copynumber: 2.7 Consensus size: 114
2049198 TTAATGTCCC
* * * * *
2049208 TTGCCACCAGAACTTGGACCCG-A--GTTCGTGAC-GACATCACTAAACGAATGACCTTTGCCTC
1 TTGCCACCAGAACTTGGACCTGAATTGGTGGTGACAGA-ATCACTAAATGCATGACCTTTGCCTC
** *
2049269 CTTCACTTGGACCTGAATTGGGGTTGACAGCATCAGTAAATGCATGACCT
65 CTGGACTTGGACCTGAATTGGGGTTGACAGCATCACTAAATGCATGACCT
* *** * * *
2049319 TTGCCGCCTTCACTTGGACCTGAATTGG-GGTTGACAGCATCAGTAAATGCATGACCTTTACCTC
1 TTGCCACCAGAACTTGGACCTGAATTGGTGG-TGACAGAATCACTAAATGCATGACCTTTGCCTC
* *
2049383 CTGGACTTGGACCTGAGTTGGTGG-TGACAGCATCACTATATGCATGACCT
65 CTGGACTTGGACCTGAATTGG-GGTTGACAGCATCACTAAATGCATGACCT
*
2049433 TTGCCACCAGAACTTGGCCCTGAATTGGTGGTGACAGAATCACTAAATGCATGACCTTTGCCTCC
1 TTGCCACCAGAACTTGGACCTGAATTGGTGGTGACAGAATCACTAAATGCATGACCTTTGCCTCC
*
2049498 TGGACTAGGACC
66 TGGACTTGGACC
2049510 ACTGGTTTTG
Statistics
Matches: 158, Mismatches: 26, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
111 17 0.11
112 1 0.01
113 1 0.01
114 134 0.85
115 5 0.03
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.26
Consensus pattern (114 bp):
TTGCCACCAGAACTTGGACCTGAATTGGTGGTGACAGAATCACTAAATGCATGACCTTTGCCTCC
TGGACTTGGACCTGAATTGGGGTTGACAGCATCACTAAATGCATGACCT
Found at i:2050191 original size:22 final size:24
Alignment explanation
Indices: 2050144--2050200 Score: 59
Period size: 22 Copynumber: 2.5 Consensus size: 24
2050134 AATTTTTTTA
* *
2050144 TTTA-ATTTATTATTTATAAATAT
1 TTTAGATTTTTTATTGATAAATAT
2050167 TTT-G-TTTTTTATTGAT-AATACT
1 TTTAGATTTTTTATTGATAAATA-T
2050189 TTTAGATTTTTT
1 TTTAGATTTTTT
2050201 TATAATTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
21 4 0.14
22 14 0.50
23 4 0.14
24 6 0.21
ACGTcount: A:0.28, C:0.02, G:0.05, T:0.65
Consensus pattern (24 bp):
TTTAGATTTTTTATTGATAAATAT
Found at i:2050205 original size:21 final size:19
Alignment explanation
Indices: 2050156--2050215 Score: 50
Period size: 21 Copynumber: 2.9 Consensus size: 19
2050146 TAATTTATTA
*
2050156 TTTATAAATATTTTGTTTTT
1 TTTAT-AATATTTTGATTTT
2050176 TATTGATAATACTTTTAGATTTT
1 T-TT-ATAATA-TTTT-GATTTT
*
2050199 TTTATAAT-TTTTTATTT
1 TTTATAATATTTTGATTT
2050216 ACAGGAAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
18 4 0.12
19 4 0.12
20 1 0.03
21 11 0.32
22 8 0.24
23 6 0.18
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.67
Consensus pattern (19 bp):
TTTATAATATTTTGATTTT
Found at i:2061221 original size:22 final size:20
Alignment explanation
Indices: 2061154--2061224 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 20
2061144 TTGTATAGTC
*
2061154 TCGAGAC-ATGTTCCTAAATC
1 TCGAGACAATGTTCCT-AATT
* * *
2061174 TCGAGACAAGTGGTCATTATT
1 TCGAGACAA-TGTTCCTAATT
2061195 TCGAGACAATTGTTCCTAAGTT
1 TCGAGACAA-TGTTCCTAA-TT
2061217 TCGAGACA
1 TCGAGACA
2061225 GAATAACATC
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
20 7 0.17
21 18 0.45
22 15 0.38
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.31
Consensus pattern (20 bp):
TCGAGACAATGTTCCTAATT
Found at i:2062333 original size:23 final size:23
Alignment explanation
Indices: 2062317--2062362 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
2062307 TATTACCTTT
2062317 GAATTAGACGATTTATTCACTTG
1 GAATTAGACGATTTATTCACTTG
2062340 GAATTAGACGATTTATTCACTTG
1 GAATTAGACGATTTATTCACTTG
2062363 ACTTATTCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.39
Consensus pattern (23 bp):
GAATTAGACGATTTATTCACTTG
Found at i:2063055 original size:13 final size:13
Alignment explanation
Indices: 2063039--2063063 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2063029 CACGACCGTG
2063039 TGGCACGCTCGTA
1 TGGCACGCTCGTA
2063052 TGGCACGCTCGT
1 TGGCACGCTCGT
2063064 GTGAAGGTGC
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:0.12, C:0.32, G:0.32, T:0.24
Consensus pattern (13 bp):
TGGCACGCTCGTA
Done.