Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold51
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: 3712191
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.32
Warning! 131352 characters in sequence are not A, C, G, or T
File 13 of 23
Found at i:1818956 original size:48 final size:48
Alignment explanation
Indices: 1818903--1819048 Score: 154
Period size: 48 Copynumber: 3.0 Consensus size: 48
1818893 AGGTTGGAGT
* *
1818903 ATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAA-TAGGGGTTGG
1 ATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACT-GGGGTTGG
*
1818951 ATCCCCGATTATGAAAAATTGATGTTTTGGAAATAAAACTGGGGTTAGAG
1 ATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACTGGGGTT-G-G
** * * **
1819001 TATCCCC-AAGATGAAAAA-TAATATTTTAGAAATAAAGTTGGGGTTGG
1 -ATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACTGGGGTTGG
1819048 A
1 A
1819049 GTATCCCGGA
Statistics
Matches: 84, Mismatches: 10, Indels: 10
0.81 0.10 0.10
Matches are distributed among these distances:
46 1 0.01
47 1 0.01
48 42 0.50
49 24 0.29
50 10 0.12
51 6 0.07
ACGTcount: A:0.37, C:0.09, G:0.24, T:0.30
Consensus pattern (48 bp):
ATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACTGGGGTTGG
Found at i:1819043 original size:49 final size:48
Alignment explanation
Indices: 1818927--1819068 Score: 144
Period size: 49 Copynumber: 2.9 Consensus size: 48
1818917 AAAATTGGTG
* ** * *
1818927 TTTTAGAAATAAAATAGGGGTTG-G-ATCCCCGATTATGAAAAATTGATG
1 TTTTAGAAATAAAATTGGGGTTGAGTATCCCC-AAGATGAAAAA-TAATA
* *
1818975 TTTTGGAAATAAAACTGGGGTTAGAGTATCCCCAAGATGAAAAATAATA
1 TTTTAGAAATAAAATTGGGGTT-GAGTATCCCCAAGATGAAAAATAATA
* **
1819024 TTTTAGAAATAAAGTTGGGGTTGGAGTATCCCGGAGATGAAAAAT
1 TTTTAGAAATAAAATTGGGGTT-GAGTATCCCCAAGATGAAAAAT
1819069 CTAGAAATTT
Statistics
Matches: 78, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
48 19 0.24
49 43 0.55
50 10 0.13
51 6 0.08
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.29
Consensus pattern (48 bp):
TTTTAGAAATAAAATTGGGGTTGAGTATCCCCAAGATGAAAAATAATA
Found at i:1821378 original size:20 final size:20
Alignment explanation
Indices: 1821353--1821407 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
1821343 AAAAAGCCTG
1821353 AATGTATCGATACATTGAAA
1 AATGTATCGATACATTGAAA
* *
1821373 AATGTATCGATACAATGAAC
1 AATGTATCGATACATTGAAA
1821393 AATGTATCGATACAT
1 AATGTATCGATACAT
1821408 CTTGGTAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.29
Consensus pattern (20 bp):
AATGTATCGATACATTGAAA
Found at i:1822727 original size:13 final size:13
Alignment explanation
Indices: 1822709--1822734 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1822699 CAATTTTTTG
1822709 TGTATCGATACAT
1 TGTATCGATACAT
1822722 TGTATCGATACAT
1 TGTATCGATACAT
1822735 ACTTGCTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1825299 original size:13 final size:13
Alignment explanation
Indices: 1825281--1825319 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
1825271 ATAATCACCC
1825281 TGTATCGATACAA
1 TGTATCGATACAA
1825294 TGTATCGATACAA
1 TGTATCGATACAA
1825307 TGTATCGATACAA
1 TGTATCGATACAA
1825320 AGAAAAAATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1827427 original size:15 final size:15
Alignment explanation
Indices: 1827391--1827428 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
1827381 TTCATCAATT
* *
1827391 TCATTTGGAGCTTCT
1 TCATTTTGAGCTTCC
1827406 TCATTTTGAGCTTCC
1 TCATTTTGAGCTTCC
1827421 TCATTTTG
1 TCATTTTG
1827429 GACATTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.13, C:0.21, G:0.16, T:0.50
Consensus pattern (15 bp):
TCATTTTGAGCTTCC
Found at i:1829068 original size:21 final size:21
Alignment explanation
Indices: 1829039--1829083 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1829029 AAGTTTTCAT
*
1829039 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
1829059 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
1829081 TTT
1 TTT
1829084 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:1837466 original size:20 final size:18
Alignment explanation
Indices: 1837443--1837494 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 18
1837433 CACATCTAGA
1837443 TGTATCGATACAT-TATGCTT
1 TGTATCGATACATGT-T-C-T
*
1837463 TGTATTGATACATGTTCT
1 TGTATCGATACATGTTCT
1837481 TGTATCGATACATG
1 TGTATCGATACATG
1837495 AAACTAACAG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 14 0.48
19 1 0.03
20 13 0.45
21 1 0.03
ACGTcount: A:0.25, C:0.13, G:0.17, T:0.44
Consensus pattern (18 bp):
TGTATCGATACATGTTCT
Found at i:1839657 original size:15 final size:16
Alignment explanation
Indices: 1839623--1839664 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
1839613 AAATAAATCA
*
1839623 AAAATTGTTGAAAATG
1 AAAATTATTGAAAATG
*
1839639 -AAATTCTTGAAAA-G
1 AAAATTATTGAAAATG
1839653 AAAATTATTGAA
1 AAAATTATTGAA
1839665 CTAGAAAAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 1 0.04
15 22 0.96
ACGTcount: A:0.52, C:0.02, G:0.14, T:0.31
Consensus pattern (16 bp):
AAAATTATTGAAAATG
Found at i:1845096 original size:20 final size:20
Alignment explanation
Indices: 1845073--1845159 Score: 99
Period size: 20 Copynumber: 4.5 Consensus size: 20
1845063 AAACCTAGAT
1845073 GTATCGATACATATTGCTTA
1 GTATCGATACATATTGCTTA
* *
1845093 GTATCGATACATGTT--TTG
1 GTATCGATACATATTGCTTA
* * *
1845111 GTATCGATACACACTGAATT-
1 GTATCGATACATATTG-CTTA
1845131 GTATCGATACATATTGCTTA
1 GTATCGATACATATTGCTTA
1845151 GTATCGATA
1 GTATCGATA
1845160 TAATGTATCG
Statistics
Matches: 55, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
18 14 0.25
19 2 0.04
20 37 0.67
21 2 0.04
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.38
Consensus pattern (20 bp):
GTATCGATACATATTGCTTA
Found at i:1845172 original size:33 final size:32
Alignment explanation
Indices: 1845130--1845191 Score: 97
Period size: 33 Copynumber: 1.9 Consensus size: 32
1845120 CACACTGAAT
1845130 TGTATCGATACATATTGCTTAGTATCGATATAA
1 TGTATCGATACATATT-CTTAGTATCGATATAA
* *
1845163 TGTATCGATACATGTTCTTGGTATCGATA
1 TGTATCGATACATATTCTTAGTATCGATA
1845192 CACACTGAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 12 0.44
33 15 0.56
ACGTcount: A:0.29, C:0.13, G:0.18, T:0.40
Consensus pattern (32 bp):
TGTATCGATACATATTCTTAGTATCGATATAA
Found at i:1846877 original size:142 final size:141
Alignment explanation
Indices: 1846367--1846917 Score: 717
Period size: 141 Copynumber: 3.9 Consensus size: 141
1846357 GTAAATTTTG
* *
1846367 AAAATCTCATTTCGTACCTTAATGGAGAACCGAAAAGGTACAAAAAGTTTTGAAGA-ATTCTATA
1 AAAAT-TCATTTCGTACCTTAATGGAGAACCGAAAAGATATAAAAAGTTTTGAAGATA-TCTATA
* * * * * *
1846431 CCCCTAGGGAAAACCATAGGAATATTAGAAATATTGAAAAATGAAGATAATAATTTTTATTTAGT
64 CCTCTATGGAAAACCATAGGAATACTAGAAATCTTGAAAAATTAAGATAATAATTTTTATTTAAT
1846496 TTTTAATTTTCAA
129 TTTTAATTTTCAA
* * *
1846509 AAAATTCATTTTGTACCTTAATGGAGAACCGAAAAGATATGAAAAGTTTTGAAGATTTCTATACC
1 AAAATTCATTTCGTACCTTAATGGAGAACCGAAAAGATATAAAAAGTTTTGAAGATATCTATACC
* * * *
1846574 TCTTTCGAAAACCATAGGAATATTAGAAATCTTGAAAAATTAAGATAATAATTTTTGTTTAATTT
66 TCTATGGAAAACCATAGGAATACTAGAAATCTTGAAAAATTAAGATAATAATTTTTATTTAATTT
*
1846639 TTAATTTCCAA
131 TTAATTTTCAA
* * * * * * * * * *
1846650 AAAATTTATTACGTACTTTAATGAAGAACTGAAAATATATGAAAAGTTTTGAAGATTTTTATGCC
1 AAAATTCATTTCGTACCTTAATGGAGAACCGAAAAGATATAAAAAGTTTTGAAGATATCTATACC
* * * * *
1846715 TTTACGGGAAACTAAAGGAATACTAGAAATCTTGAAAAATTAAGATAATAATTTTTATTTAATTT
66 TCTATGGAAAACCATAGGAATACTAGAAATCTTGAAAAATTAAGATAATAATTTTTATTTAA-TT
**
1846780 TTTAATTTTTGA
130 TTTAATTTTCAA
* * *
1846792 AAAATTCATTTCATACCTTAATGGAGAATCAAAAAGATATAAAAAGTTTTGAAGATATCTATACC
1 AAAATTCATTTCGTACCTTAATGGAGAACCGAAAAGATATAAAAAGTTTTGAAGATATCTATACC
* * *
1846857 TCTATGGAAAACTAGAGGAATACTAGAAATCTTGAAAAATTAAGAAAATAATTTTTATTTA
66 TCTATGGAAAACCATAGGAATACTAGAAATCTTGAAAAATTAAGATAATAATTTTTATTTA
1846918 GTGATAAAAC
Statistics
Matches: 354, Mismatches: 53, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
141 230 0.65
142 124 0.35
ACGTcount: A:0.43, C:0.09, G:0.13, T:0.35
Consensus pattern (141 bp):
AAAATTCATTTCGTACCTTAATGGAGAACCGAAAAGATATAAAAAGTTTTGAAGATATCTATACC
TCTATGGAAAACCATAGGAATACTAGAAATCTTGAAAAATTAAGATAATAATTTTTATTTAATTT
TTAATTTTCAA
Found at i:1846964 original size:16 final size:16
Alignment explanation
Indices: 1846930--1846961 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
1846920 GATAAAACAA
1846930 TATTTATTTATTATTT
1 TATTTATTTATTATTT
1846946 TATTTATTTA-TATTT
1 TATTTATTTATTATTT
1846961 T
1 T
1846962 TATATTTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (16 bp):
TATTTATTTATTATTT
Found at i:1850809 original size:33 final size:32
Alignment explanation
Indices: 1850769--1850837 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 32
1850759 CCGTTACAAG
1850769 CAATGTATCGATACAATTCAT-CATGTATCGATA
1 CAATGTATCGATAC-ATT-ATACATGTATCGATA
1850802 CAATGTATCGATACATTATACCATGTATCGATA
1 CAATGTATCGATACATTATA-CATGTATCGATA
1850835 CAA
1 CAA
1850838 ACAGTGGTAG
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
31 2 0.06
32 3 0.09
33 29 0.85
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.32
Consensus pattern (32 bp):
CAATGTATCGATACATTATACATGTATCGATA
Found at i:1850822 original size:20 final size:20
Alignment explanation
Indices: 1850799--1850836 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1850789 TCATGTATCG
1850799 ATACAATGTATCGATACATT
1 ATACAATGTATCGATACATT
*
1850819 ATACCATGTATCGATACA
1 ATACAATGTATCGATACA
1850837 AACAGTGGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (20 bp):
ATACAATGTATCGATACATT
Found at i:1850835 original size:13 final size:13
Alignment explanation
Indices: 1850769--1850816 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 13
1850759 CCGTTACAAG
1850769 CAATGTATCGATA
1 CAATGTATCGATA
1850782 CAA--T-TC-AT-
1 CAATGTATCGATA
1850790 C-ATGTATCGATA
1 CAATGTATCGATA
1850802 CAATGTATCGATA
1 CAATGTATCGATA
1850815 CA
1 CA
1850817 TTATACCATG
Statistics
Matches: 29, Mismatches: 0, Indels: 12
0.71 0.00 0.29
Matches are distributed among these distances:
7 1 0.03
8 1 0.03
9 3 0.10
10 4 0.14
11 3 0.10
12 1 0.03
13 16 0.55
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:1851511 original size:22 final size:22
Alignment explanation
Indices: 1851476--1851549 Score: 89
Period size: 21 Copynumber: 3.5 Consensus size: 22
1851466 AGTTTTCATT
* *
1851476 TTTCTCCCCCTTAATTAAAGAA
1 TTTCTACCCCTTAATCAAAGAA
* *
1851498 TTTCTTCCCTTTAATCAAA-AA
1 TTTCTACCCCTTAATCAAAGAA
*
1851519 TTTCTACCCCTTAATCAAAGCA
1 TTTCTACCCCTTAATCAAAGAA
1851541 TTTCT-CCCC
1 TTTCTACCCC
1851550 GTTTGTCAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
21 23 0.51
22 22 0.49
ACGTcount: A:0.28, C:0.31, G:0.03, T:0.38
Consensus pattern (22 bp):
TTTCTACCCCTTAATCAAAGAA
Found at i:1853609 original size:18 final size:20
Alignment explanation
Indices: 1853568--1853609 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
1853558 CTATAGACCC
1853568 TAATTCATATCAAACAAGCA
1 TAATTCATATCAAACAAGCA
*
1853588 TAATTCAT-TCACACAA-CA
1 TAATTCATATCAAACAAGCA
1853606 TAAT
1 TAAT
1853610 AAACATCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.29
19 7 0.33
20 8 0.38
ACGTcount: A:0.48, C:0.21, G:0.02, T:0.29
Consensus pattern (20 bp):
TAATTCATATCAAACAAGCA
Found at i:1853639 original size:29 final size:32
Alignment explanation
Indices: 1853589--1853651 Score: 96
Period size: 30 Copynumber: 2.1 Consensus size: 32
1853579 AAACAAGCAT
*
1853589 AATTCATTCACACAACATAAT-AAA-CATCAA
1 AATTCATTCACACAACAAAATAAAATCATCAA
1853619 AATTCATTCA-ACAACAAAATAAAATCATCAA
1 AATTCATTCACACAACAAAATAAAATCATCAA
1853650 AA
1 AA
1853652 ATCACTTTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 9 0.30
30 13 0.43
31 8 0.27
ACGTcount: A:0.57, C:0.21, G:0.00, T:0.22
Consensus pattern (32 bp):
AATTCATTCACACAACAAAATAAAATCATCAA
Found at i:1859472 original size:33 final size:33
Alignment explanation
Indices: 1859432--1859500 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
1859422 CCGTTACAAG
*
1859432 CAATGTATCAATACAATT-CATCATGTATCGATA
1 CAATGTATCAATA-AATTGCACCATGTATCGATA
* * *
1859465 CAATGTATCGATATATTGTACCATGTATCGATA
1 CAATGTATCAATAAATTGCACCATGTATCGATA
1859498 CAA
1 CAA
1859501 ACAATGGTAG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 3 0.10
33 28 0.90
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (33 bp):
CAATGTATCAATAAATTGCACCATGTATCGATA
Found at i:1859573 original size:19 final size:19
Alignment explanation
Indices: 1859529--1859601 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 19
1859519 CTGCCAATCT
**
1859529 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
1859549 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
*
1859568 CATGTATCGATACAAAGCATA
1 CATGTATCGATACAATG-A-A
1859589 -ATGTATCGATACA
1 CATGTATCGATACA
1859602 TCTGGGTGTG
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
19 18 0.38
20 29 0.60
21 1 0.02
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.29
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:1860303 original size:20 final size:20
Alignment explanation
Indices: 1860275--1860316 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
1860265 ATTCTTATTA
*
1860275 AAAAAAGATCAATTCCTCTT
1 AAAAAAGATCAATCCCTCTT
*
1860295 AAAATAGATCAATCCCTCTT
1 AAAAAAGATCAATCCCTCTT
1860315 AA
1 AA
1860317 GAATTTATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.21, G:0.05, T:0.29
Consensus pattern (20 bp):
AAAAAAGATCAATCCCTCTT
Found at i:1863019 original size:17 final size:18
Alignment explanation
Indices: 1862993--1863039 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
1862983 TTTTTAATTA
*
1862993 TATAATTTATAT-TATCTT
1 TATAATTTATATATAT-TG
1863011 TAT-ATTTATATATATTG
1 TATAATTTATATATATTG
1863028 TATAATTTATAT
1 TATAATTTATAT
1863040 CACATAATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 12 0.46
18 14 0.54
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (18 bp):
TATAATTTATATATATTG
Found at i:1866944 original size:36 final size:36
Alignment explanation
Indices: 1866904--1866976 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
1866894 ACATTCAAGT
1866904 CATGAAAATCCTACCTATCAATTCATTCTTATTTCA
1 CATGAAAATCCTACCTATCAATTCATTCTTATTTCA
1866940 CATGAAAATCCTACCTATCAATTCATTCTTATTTCA
1 CATGAAAATCCTACCTATCAATTCATTCTTATTTCA
1866976 C
1 C
1866977 CCCTATATAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.33, C:0.26, G:0.03, T:0.38
Consensus pattern (36 bp):
CATGAAAATCCTACCTATCAATTCATTCTTATTTCA
Found at i:1867335 original size:20 final size:20
Alignment explanation
Indices: 1867298--1867351 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
1867288 TTCTACTATT
1867298 TGTATTGATACAATAAGTGAA
1 TGTATTGATAC-ATAAGTGAA
1867319 TGTATTGATACATAAGTGAA
1 TGTATTGATACATAAGTGAA
* *
1867339 CGTATCGATACAT
1 TGTATTGATACAT
1867352 GCTTGAAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 20 0.65
21 11 0.35
ACGTcount: A:0.39, C:0.09, G:0.19, T:0.33
Consensus pattern (20 bp):
TGTATTGATACATAAGTGAA
Found at i:1867466 original size:32 final size:32
Alignment explanation
Indices: 1867430--1867507 Score: 147
Period size: 32 Copynumber: 2.4 Consensus size: 32
1867420 CATTTTTCAT
1867430 TGTATCGATACATTCTAGGTTTTTGACCCAAA
1 TGTATCGATACATTCTAGGTTTTTGACCCAAA
1867462 TGTATCGATACATTCTAGGTTTTTGACCCAAA
1 TGTATCGATACATTCTAGGTTTTTGACCCAAA
*
1867494 TGTATCAATACATT
1 TGTATCGATACATT
1867508 ATTAAATGTA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 45 1.00
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATTCTAGGTTTTTGACCCAAA
Found at i:1870695 original size:33 final size:33
Alignment explanation
Indices: 1870649--1870746 Score: 142
Period size: 33 Copynumber: 3.0 Consensus size: 33
1870639 CACACCCAGA
*
1870649 TGTATCAATACAAATTGCATTGTATCGATACAT
1 TGTATCGATACAAATTGCATTGTATCGATACAT
*
1870682 TGTATCGACACAAATTGCATTGTATCGATACAT
1 TGTATCGATACAAATTGCATTGTATCGATACAT
* * * *
1870715 TATATCGATGCAACTTGCTTTGTATCGATACA
1 TGTATCGATACAAATTGCATTGTATCGATACA
1870747 CTATGGAATT
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 58 1.00
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (33 bp):
TGTATCGATACAAATTGCATTGTATCGATACAT
Found at i:1870830 original size:21 final size:21
Alignment explanation
Indices: 1870806--1870862 Score: 114
Period size: 21 Copynumber: 2.7 Consensus size: 21
1870796 ATATCGATAC
1870806 ATTGTATCGATACATGATTAA
1 ATTGTATCGATACATGATTAA
1870827 ATTGTATCGATACATGATTAA
1 ATTGTATCGATACATGATTAA
1870848 ATTGTATCGATACAT
1 ATTGTATCGATACAT
1870863 CAGGAATTGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.39
Consensus pattern (21 bp):
ATTGTATCGATACATGATTAA
Found at i:1871343 original size:35 final size:33
Alignment explanation
Indices: 1871302--1871437 Score: 157
Period size: 35 Copynumber: 4.0 Consensus size: 33
1871292 TGAAGTGATT
*
1871302 GAGAGGTTGTATCTTAGCTTTTGAAAAAGATAGG
1 GAGAGGTTCTATCTTAGCTTTTG-AAAAGATAGG
* *
1871336 GATGAGGTTCTATTTTAGCTTTTGAAAAAGATAGCA
1 GA-GAGGTTCTATCTTAGCTTTTG-AAAAGATAG-G
* * *
1871372 AAGAGGTTCTATCTTAGCCTATGAAAAGATAGG
1 GAGAGGTTCTATCTTAGCTTTTGAAAAGATAGG
1871405 GAGAAGGTTCTATCTTAG-TTTGTGAAAAGATAG
1 GAG-AGGTTCTATCTTAGCTTT-TGAAAAGATAG
1871438 AGTTGTAAGG
Statistics
Matches: 87, Mismatches: 11, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
33 3 0.03
34 36 0.41
35 47 0.54
36 1 0.01
ACGTcount: A:0.34, C:0.08, G:0.26, T:0.32
Consensus pattern (33 bp):
GAGAGGTTCTATCTTAGCTTTTGAAAAGATAGG
Found at i:1871431 original size:69 final size:69
Alignment explanation
Indices: 1871303--1871437 Score: 186
Period size: 69 Copynumber: 2.0 Consensus size: 69
1871293 GAAGTGATTG
* * * *
1871303 AGAGGTTGTATCTTAGCTTTTGAAAAAGATAGGGATGAGGTTCTATTTTAGCTTTTGAAAAAGAT
1 AGAGGTTCTATCTTAGCCTATGAAAAAGATAGGGATGAGGTTCTATCTTAGCTTTTG-AAAAGAT
1871368 AGCAA
65 AGCAA
1871373 AGAGGTTCTATCTTAGCCTATG-AAAAGATAGGGA-GAAGGTTCTATCTTAG-TTTGTGAAAAGA
1 AGAGGTTCTATCTTAGCCTATGAAAAAGATAGGGATG-AGGTTCTATCTTAGCTTT-TGAAAAGA
1871435 TAG
64 TAG
1871438 AGTTGTAAGG
Statistics
Matches: 59, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
68 13 0.22
69 27 0.46
70 19 0.32
ACGTcount: A:0.34, C:0.08, G:0.25, T:0.33
Consensus pattern (69 bp):
AGAGGTTCTATCTTAGCCTATGAAAAAGATAGGGATGAGGTTCTATCTTAGCTTTTGAAAAGATA
GCAA
Found at i:1874151 original size:19 final size:18
Alignment explanation
Indices: 1874123--1874159 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
1874113 GGATTTTTCC
1874123 AGAATGTATCGATACATT
1 AGAATGTATCGATACATT
1874141 AGAATTGTATCGATACATT
1 AGAA-TGTATCGATACATT
1874160 TAAACTATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (18 bp):
AGAATGTATCGATACATT
Found at i:1876741 original size:33 final size:33
Alignment explanation
Indices: 1876699--1876763 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
1876689 AACACCCAGA
*
1876699 TGTATCGATACAAATTGCATTGTATTGATACAT
1 TGTATCGATACAAATTGCATTGTATCGATACAT
* *
1876732 TGTATCGATACAACTTGCTTTGTATCGATACA
1 TGTATCGATACAAATTGCATTGTATCGATACA
1876764 CTATGGAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (33 bp):
TGTATCGATACAAATTGCATTGTATCGATACAT
Found at i:1876858 original size:20 final size:20
Alignment explanation
Indices: 1876830--1876885 Score: 103
Period size: 20 Copynumber: 2.8 Consensus size: 20
1876820 TACATAATTA
*
1876830 AATTGTATCGATACATCAAG
1 AATTATATCGATACATCAAG
1876850 AATTATATCGATACATCAAG
1 AATTATATCGATACATCAAG
1876870 AATTATATCGATACAT
1 AATTATATCGATACAT
1876886 TTGGCCTAAC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (20 bp):
AATTATATCGATACATCAAG
Found at i:1877359 original size:35 final size:35
Alignment explanation
Indices: 1877307--1877407 Score: 159
Period size: 35 Copynumber: 2.9 Consensus size: 35
1877297 AGTGATTGAA
1877307 AGGTTCTATCTTAGCCTTTGAAAAAGATAGGGAAG
1 AGGTTCTATCTTAGCCTTTGAAAAAGATAGGGAAG
* * *
1877342 TGGTTTTATCTTAGCCTTTGAAAAATATAGGGAAG
1 AGGTTCTATCTTAGCCTTTGAAAAAGATAGGGAAG
*
1877377 AGGTTCTATCTTAGCCTGTG-AAAAGATAGGG
1 AGGTTCTATCTTAGCCTTTGAAAAAGATAGGG
1877408 TTGTAAGGTT
Statistics
Matches: 59, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
34 10 0.17
35 49 0.83
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.32
Consensus pattern (35 bp):
AGGTTCTATCTTAGCCTTTGAAAAAGATAGGGAAG
Found at i:1878154 original size:20 final size:21
Alignment explanation
Indices: 1878129--1878179 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
1878119 CGATACATTA
*
1878129 TATCGATACATG-ACCA-AATG
1 TATCGATACATGCA-AAGAATG
*
1878149 TATCGATACTTGCAAAGAATG
1 TATCGATACATGCAAAGAATG
1878170 TATCGATACA
1 TATCGATACA
1878180 GGTGATTGGC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 12 0.46
21 14 0.54
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (21 bp):
TATCGATACATGCAAAGAATG
Found at i:1884194 original size:8 final size:8
Alignment explanation
Indices: 1884181--1884211 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
1884171 ATTTGATTAA
1884181 ATTTTGTG
1 ATTTTGTG
1884189 ATTTTGTG
1 ATTTTGTG
1884197 ATTTTGTG
1 ATTTTGTG
1884205 ATGTTTG
1 AT-TTTG
1884212 ATGTTGAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 18 0.82
9 4 0.18
ACGTcount: A:0.13, C:0.00, G:0.26, T:0.61
Consensus pattern (8 bp):
ATTTTGTG
Found at i:1884901 original size:21 final size:21
Alignment explanation
Indices: 1884866--1884906 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
1884856 AGCACTCACC
*
1884866 AGGTCGTGACCGGCA-CCCCT
1 AGGTCGTAACCGGCAGCCCCT
1884886 AGGTCGTAACCGGGCAGCCCC
1 AGGTCGTAACC-GGCAGCCCC
1884907 CACACTCACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
21 4 0.22
22 4 0.22
ACGTcount: A:0.17, C:0.39, G:0.32, T:0.12
Consensus pattern (21 bp):
AGGTCGTAACCGGCAGCCCCT
Found at i:1886308 original size:19 final size:20
Alignment explanation
Indices: 1886270--1886310 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
1886260 TGATTAAAGA
1886270 AAATTGTTTTATTAAGGGGG
1 AAATTGTTTTATTAAGGGGG
1886290 AAATT-TTTTGATTAAGGGGG
1 AAATTGTTTT-ATTAAGGGGG
1886310 A
1 A
1886311 GAGAAAAGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.32, C:0.00, G:0.29, T:0.39
Consensus pattern (20 bp):
AAATTGTTTTATTAAGGGGG
Found at i:1886902 original size:20 final size:21
Alignment explanation
Indices: 1886877--1886929 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
1886867 ATCGATCCAT
*
1886877 TGTATCGATACATG-ACCA-AA
1 TGTATCGATACATGCA-AAGAA
*
1886897 TGTATCGATACTTGCAAAGAA
1 TGTATCGATACATGCAAAGAA
1886918 TGTATCGATACA
1 TGTATCGATACA
1886930 GGTGATTGGT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (21 bp):
TGTATCGATACATGCAAAGAA
Found at i:1888341 original size:19 final size:20
Alignment explanation
Indices: 1888292--1888342 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 20
1888282 TCTAGGGATG
*
1888292 TTTG-AGAATAACCTAAAGT
1 TTTGAAGAAAAACCTAAAGT
*
1888311 TTTGAAG-GAAACCTAAAGT
1 TTTGAAGAAAAACCTAAAGT
1888330 TTT-AAGAAAAACC
1 TTTGAAGAAAAACC
1888343 ACCTAAAACG
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 3 0.11
19 22 0.81
20 2 0.07
ACGTcount: A:0.45, C:0.12, G:0.16, T:0.27
Consensus pattern (20 bp):
TTTGAAGAAAAACCTAAAGT
Found at i:1888632 original size:20 final size:20
Alignment explanation
Indices: 1888607--1888654 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
1888597 AACCCATATG
1888607 TCGATACAAAGAACAATGTA
1 TCGATACAAAGAACAATGTA
*
1888627 TCGATACAAAGAACATTGTA
1 TCGATACAAAGAACAATGTA
*
1888647 TCAATACA
1 TCGATACA
1888655 TCTAAGTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.48, C:0.17, G:0.12, T:0.23
Consensus pattern (20 bp):
TCGATACAAAGAACAATGTA
Found at i:1893194 original size:15 final size:15
Alignment explanation
Indices: 1893176--1893210 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
1893166 CGAGTCAACT
1893176 TCATCATTATCATCA
1 TCATCATTATCATCA
*
1893191 TCATCATTATCTTCA
1 TCATCATTATCATCA
1893206 TCATC
1 TCATC
1893211 TTTGATGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.43
Consensus pattern (15 bp):
TCATCATTATCATCA
Found at i:1894838 original size:33 final size:33
Alignment explanation
Indices: 1894794--1894858 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
1894784 TTTGGGACAA
*
1894794 TGTATCAATACAAT-TCGTCATCTATCGATACAT
1 TGTATCAATACAATGT-GCCATCTATCGATACAT
* *
1894827 TGTATCGATACAATGTGCCATGTATCGATACA
1 TGTATCAATACAATGTGCCATCTATCGATACA
1894859 AATAGTAGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 27 0.96
34 1 0.04
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.34
Consensus pattern (33 bp):
TGTATCAATACAATGTGCCATCTATCGATACAT
Found at i:1905642 original size:13 final size:13
Alignment explanation
Indices: 1905624--1905648 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1905614 TTCACTATGT
1905624 ATCGATACAATGG
1 ATCGATACAATGG
1905637 ATCGATACAATG
1 ATCGATACAATG
1905649 TCCCATGTAT
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:0.40, C:0.16, G:0.20, T:0.24
Consensus pattern (13 bp):
ATCGATACAATGG
Found at i:1906420 original size:22 final size:21
Alignment explanation
Indices: 1906388--1906458 Score: 67
Period size: 22 Copynumber: 3.4 Consensus size: 21
1906378 CAAAACATAA
* *
1906388 CTCCCCTTTAATTAAGAATTTT
1 CTCCCCCTTAA-TAAAAATTTT
1906410 CTCCCCCTTAATAAAAA-TTT
1 CTCCCCCTTAATAAAAATTTT
* *
1906430 -T-CCCCTTAAAAAAAATATCT
1 CTCCCCCTTAATAAAAAT-TTT
1906450 CTCCCCCTT
1 CTCCCCCTT
1906459 TTTGTTTCCA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
18 13 0.32
19 1 0.02
20 5 0.12
21 6 0.15
22 16 0.39
ACGTcount: A:0.31, C:0.31, G:0.01, T:0.37
Consensus pattern (21 bp):
CTCCCCCTTAATAAAAATTTT
Found at i:1908238 original size:11 final size:10
Alignment explanation
Indices: 1908212--1908245 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
1908202 GTAATGATCT
*
1908212 AAATTTGATG
1 AAATTTGAAG
1908222 AAATTTGAAG
1 AAATTTGAAG
1908232 AAGATTTGAAG
1 AA-ATTTGAAG
1908243 AAA
1 AAA
1908246 ATGAGGATTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.50, C:0.00, G:0.21, T:0.29
Consensus pattern (10 bp):
AAATTTGAAG
Found at i:1914542 original size:13 final size:13
Alignment explanation
Indices: 1914524--1914548 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1914514 TTTCACTATG
1914524 TATCGATACAATA
1 TATCGATACAATA
1914537 TATCGATACAAT
1 TATCGATACAAT
1914549 GTCCTATGTA
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:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (13 bp):
TATCGATACAATA
Found at i:1914655 original size:13 final size:13
Alignment explanation
Indices: 1914637--1914661 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1914627 ACCAAGATCA
1914637 TGTATCGATACAG
1 TGTATCGATACAG
1914650 TGTATCGATACA
1 TGTATCGATACA
1914662 AAGCAATATG
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:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:1914693 original size:20 final size:21
Alignment explanation
Indices: 1914670--1914708 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
1914660 CAAAGCAATA
*
1914670 TGTATTGATA-TTTCTAAGCT
1 TGTATCGATACTTTCTAAGCT
1914690 TGTATCGATACTTTCTAAG
1 TGTATCGATACTTTCTAAG
1914709 GTTTTGACCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.26, C:0.13, G:0.15, T:0.46
Consensus pattern (21 bp):
TGTATCGATACTTTCTAAGCT
Found at i:1916274 original size:18 final size:18
Alignment explanation
Indices: 1916253--1916295 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
1916243 TTTTTTTATA
1916253 CTTTCT-TTTTTCTTCTTT
1 CTTTCTCTTTTTCTT-TTT
1916271 CTTT-TCTTTTTCTTTTT
1 CTTTCTCTTTTTCTTTTT
*
1916288 TTTTCTCT
1 CTTTCTCT
1916296 CCTTTTCAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (18 bp):
CTTTCTCTTTTTCTTTTT
Found at i:1916275 original size:12 final size:11
Alignment explanation
Indices: 1916260--1916293 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
1916250 ATACTTTCTT
1916260 TTTTCTTCTTTC
1 TTTTCTT-TTTC
1916272 TTTTCTTTTTC
1 TTTTCTTTTTC
1916283 TTTT-TTTTTC
1 TTTTCTTTTTC
1916293 T
1 T
1916294 CTCCTTTTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 7 0.32
11 8 0.36
12 7 0.32
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTTCTTTTTC
Found at i:1916282 original size:25 final size:26
Alignment explanation
Indices: 1916254--1916302 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
1916244 TTTTTTATAC
*
1916254 TTTCTTTTTTCTTCT-TTCTTTTCTT
1 TTTCTTTTTTCTTCTCTCCTTTTCTT
*
1916279 TTTCTTTTTTTTTCTCTCCTTTTC
1 TTTCTTTTTTCTTCTCTCCTTTTC
1916303 AGCTGAAGCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 14 0.67
26 7 0.33
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (26 bp):
TTTCTTTTTTCTTCTCTCCTTTTCTT
Found at i:1921044 original size:51 final size:51
Alignment explanation
Indices: 1920973--1921091 Score: 193
Period size: 51 Copynumber: 2.3 Consensus size: 51
1920963 TGCAAATAAT
*
1920973 GGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAGGCC
1 GGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAAGCC
* * * *
1921024 GGGGTTGAAGTATCCTCGATTGTGAGAAATCAATATTTTGGAAATAAAGCC
1 GGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAAGCC
1921075 GGGGTTGGAGTATCCCC
1 GGGGTTGGAGTATCCCC
1921092 TCGGAAATAA
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 61 1.00
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.28
Consensus pattern (51 bp):
GGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAAGCC
Found at i:1921054 original size:130 final size:130
Alignment explanation
Indices: 1920874--1921222 Score: 368
Period size: 130 Copynumber: 2.7 Consensus size: 130
1920864 CGAGAAATTT
* * * *
1920874 AATATTTTGGAGATAACAA-CGGGGCTGAAGTATCCCCGATTAT-AGAAAATCAATGTTTTAAAA
1 AATATTTTAGAAATAA-AACCGGGGTTGAAGTATCCCCGATTATGAG-AAATCAATGTTTTAGAA
*
1920937 ATAAAATCAGGGTTGGAGTATCCCCGT-GCAAATAATGGGGTTGGAGTATCCCCGATTATGAGAA
64 ATAAAATC-GGGTTGGAGTATCCCCGTCGCAAATAACGGGGTTGGAGTATCCCCGATTATGA-AA
1921001 A-TC
127 AGTC
** * * * *
1921004 AATATTTTAGAAATAAGGCCGGGGTTGAAGTATCCTCGATTGTGAGAAATCAATATTTTGGAAAT
1 AATATTTTAGAAATAAAACCGGGGTTGAAGTATCCCCGATTATGAGAAATCAATGTTTTAGAAAT
** * *
1921069 AAAGCCGGGGTTGGAGTATCCCC-TCGGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAGT
66 AAAATC-GGGTTGGAGTATCCCCGTCGCAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAGT
1921133 C
130 C
* * * * * * * ***
1921134 AGTGTTTTGGAAATAAAATCAGAGTTGGAGTATCCCCGATTATCGAG-AATGGGTGTTTTAGAAA
1 AATATTTTAGAAATAAAACCGGGGTTGAAGTATCCCCGATTAT-GAGAAATCAATGTTTTAGAAA
1921198 TAAAATCGGAGTTGGAGTATCCCCG
65 TAAAATCGG-GTTGGAGTATCCCCG
1921223 ATTATGGAGA
Statistics
Matches: 178, Mismatches: 34, Indels: 13
0.79 0.15 0.06
Matches are distributed among these distances:
129 6 0.03
130 167 0.94
131 5 0.03
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (130 bp):
AATATTTTAGAAATAAAACCGGGGTTGAAGTATCCCCGATTATGAGAAATCAATGTTTTAGAAAT
AAAATCGGGTTGGAGTATCCCCGTCGCAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAGTC
Found at i:1921106 original size:79 final size:79
Alignment explanation
Indices: 1921023--1921170 Score: 208
Period size: 79 Copynumber: 1.9 Consensus size: 79
1921013 GAAATAAGGC
* * * *
1921023 CGGGGTTGAAGTATCCTCGATTGTGAGAAA-TCAATATTTTGGAAATAAAGCCGGGGTTGGAGTA
1 CGGGGTTGAAGTATCCCCGATTGTGA-AAAGTCAATATTTTGGAAATAAAACCAGAGTTGGAGTA
1921087 TCCCCTCGGAAATAA
65 TCCCCTCGGAAATAA
* * * *
1921102 CGGGGTTGGAGTATCCCCGATTGTGAAAAGTCAGTGTTTTGGAAATAAAATCAGAGTTGGAGTAT
1 CGGGGTTGAAGTATCCCCGATTGTGAAAAGTCAATATTTTGGAAATAAAACCAGAGTTGGAGTAT
1921167 CCCC
66 CCCC
1921171 GATTATCGAG
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
78 3 0.05
79 57 0.95
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.27
Consensus pattern (79 bp):
CGGGGTTGAAGTATCCCCGATTGTGAAAAGTCAATATTTTGGAAATAAAACCAGAGTTGGAGTAT
CCCCTCGGAAATAA
Found at i:1921167 original size:51 final size:51
Alignment explanation
Indices: 1921106--1921328 Score: 315
Period size: 51 Copynumber: 4.4 Consensus size: 51
1921096 AAATAACGGG
* * ** * *
1921106 GTTGGAGTATCCCCGATTGT-GAAAAGTCAGTGTTTTGGAAATAAAATCAGA
1 GTTGGAGTATCCCCGATTATCGAGAA-TGGGTGTTTTAGAAATAAAATCGGA
1921157 GTTGGAGTATCCCCGATTATCGAGAATGGGTGTTTTAGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATCGAGAATGGGTGTTTTAGAAATAAAATCGGA
* *
1921208 GTTGGAGTATCCCCGATTATGGAGAATGGGTGTTTTAGAAATAAAATTGGA
1 GTTGGAGTATCCCCGATTATCGAGAATGGGTGTTTTAGAAATAAAATCGGA
* *
1921259 GTTGGAATATCCCCGATTA-CGGAGAATGGGTGTTTTAGAAATAAAATCGAA
1 GTTGGAGTATCCCCGATTATC-GAGAATGGGTGTTTTAGAAATAAAATCGGA
*
1921310 GTTGGAGTATCCCTGATTA
1 GTTGGAGTATCCCCGATTA
1921329 AGAAAAATAG
Statistics
Matches: 156, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
51 152 0.97
52 4 0.03
ACGTcount: A:0.32, C:0.11, G:0.27, T:0.30
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTATCGAGAATGGGTGTTTTAGAAATAAAATCGGA
Found at i:1923772 original size:20 final size:20
Alignment explanation
Indices: 1923747--1923798 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
1923737 TACAAGCCAA
**
1923747 TGTATCGATACAATTTTTGG
1 TGTATCGATACAATACTTGG
1923767 TGTATCGATAC-ATACTTGG
1 TGTATCGATACAATACTTGG
1923786 TGTATCGATACAA
1 TGTATCGATACAA
1923799 GTTTGGCTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.38
Consensus pattern (20 bp):
TGTATCGATACAATACTTGG
Found at i:1923804 original size:19 final size:18
Alignment explanation
Indices: 1923747--1923804 Score: 71
Period size: 19 Copynumber: 3.0 Consensus size: 18
1923737 TACAAGCCAA
1923747 TGTATCGATACAATTTTTGG
1 TGTATCGATACAA--TTTGG
*
1923767 TGTATCGATACATACTTGG
1 TGTATCGATACA-ATTTGG
1923786 TGTATCGATACAAGTTTGG
1 TGTATCGATACAA-TTTGG
1923805 CTACTGCCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
18 1 0.03
19 20 0.59
20 12 0.35
21 1 0.03
ACGTcount: A:0.26, C:0.12, G:0.22, T:0.40
Consensus pattern (18 bp):
TGTATCGATACAATTTGG
Found at i:1926345 original size:13 final size:13
Alignment explanation
Indices: 1926327--1926352 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1926317 ATAATCACCC
1926327 TGTATCGATACAA
1 TGTATCGATACAA
1926340 TGTATCGATACAA
1 TGTATCGATACAA
1926353 AGAAAAATGT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1928450 original size:15 final size:15
Alignment explanation
Indices: 1928430--1928460 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1928420 ATTTCGTTTG
*
1928430 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
1928445 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
1928460 G
1 G
1928461 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:1932530 original size:20 final size:20
Alignment explanation
Indices: 1932505--1932556 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
1932495 TACAAGCCAA
**
1932505 TGTATCGATACAATTTTTGG
1 TGTATCGATACAATACTTGG
1932525 TGTATCGATAC-ATACTTGG
1 TGTATCGATACAATACTTGG
1932544 TGTATCGATACAA
1 TGTATCGATACAA
1932557 GTTTGGCTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.38
Consensus pattern (20 bp):
TGTATCGATACAATACTTGG
Found at i:1932562 original size:19 final size:18
Alignment explanation
Indices: 1932505--1932562 Score: 71
Period size: 19 Copynumber: 3.0 Consensus size: 18
1932495 TACAAGCCAA
1932505 TGTATCGATACAATTTTTGG
1 TGTATCGATACAA--TTTGG
*
1932525 TGTATCGATACATACTTGG
1 TGTATCGATACA-ATTTGG
1932544 TGTATCGATACAAGTTTGG
1 TGTATCGATACAA-TTTGG
1932563 CTACTGCCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
18 1 0.03
19 20 0.59
20 12 0.35
21 1 0.03
ACGTcount: A:0.26, C:0.12, G:0.22, T:0.40
Consensus pattern (18 bp):
TGTATCGATACAATTTGG
Found at i:1933793 original size:21 final size:21
Alignment explanation
Indices: 1933769--1933824 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
1933759 GTTGGGACCT
*
1933769 TGTATTGATACATTCTACAAA
1 TGTATCGATACATTCTACAAA
1933790 TGTATCGATACATTCTACAAA
1 TGTATCGATACATTCTACAAA
1933811 TGTATCGATACATT
1 TGTATCGATACATT
1933825 TGGAAAAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTCTACAAA
Found at i:1934156 original size:19 final size:20
Alignment explanation
Indices: 1934114--1934204 Score: 103
Period size: 20 Copynumber: 4.6 Consensus size: 20
1934104 AAGCCCAGAA
*
1934114 GTATCGATACATATTGCTTT
1 GTATCGATACATATTGCATT
*
1934134 GTATCGATACATGTT-CATT
1 GTATCGATACATATTGCATT
** *
1934153 GTATCGATACATAAGGAATT
1 GTATCGATACATATTGCATT
** *
1934173 GTATCGATACATAAGGAATT
1 GTATCGATACATATTGCATT
1934193 GTATCGATACAT
1 GTATCGATACAT
1934205 GAAACTGGCA
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
19 15 0.23
20 49 0.77
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.36
Consensus pattern (20 bp):
GTATCGATACATATTGCATT
Found at i:1934175 original size:20 final size:20
Alignment explanation
Indices: 1934150--1934204 Score: 110
Period size: 20 Copynumber: 2.8 Consensus size: 20
1934140 ATACATGTTC
1934150 ATTGTATCGATACATAAGGA
1 ATTGTATCGATACATAAGGA
1934170 ATTGTATCGATACATAAGGA
1 ATTGTATCGATACATAAGGA
1934190 ATTGTATCGATACAT
1 ATTGTATCGATACAT
1934205 GAAACTGGCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.33
Consensus pattern (20 bp):
ATTGTATCGATACATAAGGA
Found at i:1937192 original size:79 final size:79
Alignment explanation
Indices: 1936872--1937192 Score: 281
Period size: 79 Copynumber: 4.1 Consensus size: 79
1936862 TTCATCGATG
* * * * *
1936872 TTTTTATTTCTAAAATACCGATTTTCCACCATC-AGGGATAC-CTAACCCTGTTATTTCTGAGGG
1 TTTTTATTTCTAAAACATCGATTTTCCACAATCGA-GGATACTCCAACCCCGTTATTTCTGAGGG
* * *
1936935 GATACTTCAACTCTA
65 GATACTCCAACCCCA
** * * * * *
1936950 GCTTTATTTCTAAAACATCGATTTTCTATAATTGAGGATACTCCAACCCCATTATTTTTGAGGGG
1 TTTTTATTTCTAAAACATCGATTTTCCACAATCGAGGATACTCCAACCCCGTTATTTCTGAGGGG
1937015 ATACTCCAACCCCA
66 ATACTCCAACCCCA
*** * * * * *** *
1937029 ACCTTATTTCTAAAACATCGATTTTTCATAATCGAGAATACTCTAACATTGTTATTT-TCGTGGG
1 TTTTTATTTCTAAAACATCGATTTTCCACAATCGAGGATACTCCAACCCCGTTATTTCT-GAGGG
*
1937093 GATACTCCAACCTCGA
65 GATACTCCAACC-CCA
* * * * *
1937109 -TTTTATTTCCAAAACATTGATTTTCCACCATTGGGGATACTCCAACCCCGTTATTTCTGAGGGG
1 TTTTTATTTCTAAAACATCGATTTTCCACAATCGAGGATACTCCAACCCCGTTATTTCTGAGGGG
* *
1937173 GTACTCTAACCCCA
66 ATACTCCAACCCCA
1937187 TTTTTA
1 TTTTTA
1937193 CCTCCAAAAT
Statistics
Matches: 191, Mismatches: 46, Indels: 11
0.77 0.19 0.04
Matches are distributed among these distances:
78 34 0.18
79 154 0.81
80 3 0.02
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.36
Consensus pattern (79 bp):
TTTTTATTTCTAAAACATCGATTTTCCACAATCGAGGATACTCCAACCCCGTTATTTCTGAGGGG
ATACTCCAACCCCA
Found at i:1938711 original size:33 final size:33
Alignment explanation
Indices: 1938674--1938740 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1938664 GTTACAAGCT
* * **
1938674 ATGTATTGATACATTTCTTCATGTATCGATACA
1 ATGTATCGATACATTGCACCATGTATCGATACA
1938707 ATGTATCGATACATTGCACCATGTATCGATACA
1 ATGTATCGATACATTGCACCATGTATCGATACA
1938740 A
1 A
1938741 ATAGTGATAG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (33 bp):
ATGTATCGATACATTGCACCATGTATCGATACA
Found at i:1938712 original size:13 final size:13
Alignment explanation
Indices: 1938694--1938719 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1938684 ACATTTCTTC
1938694 ATGTATCGATACA
1 ATGTATCGATACA
1938707 ATGTATCGATACA
1 ATGTATCGATACA
1938720 TTGCACCATG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1938793 original size:21 final size:21
Alignment explanation
Indices: 1938769--1938864 Score: 110
Period size: 19 Copynumber: 4.8 Consensus size: 21
1938759 CTGCCAATTT
*
1938769 CATGTATCGATACAATTTGTT
1 CATGTATCGATACAATTTGTA
* *
1938790 CATGTATTGATAC-A-TTGAA
1 CATGTATCGATACAATTTGTA
* *
1938809 CATGTATCAATACAATTTGTC
1 CATGTATCGATACAATTTGTA
*
1938830 CATGTATCGATAC-A-TTGAA
1 CATGTATCGATACAATTTGTA
1938849 CATGTATCGATACAAT
1 CATGTATCGATACAAT
1938865 GTATCGATAC
Statistics
Matches: 61, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
19 30 0.49
20 4 0.07
21 27 0.44
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (21 bp):
CATGTATCGATACAATTTGTA
Found at i:1938824 original size:40 final size:40
Alignment explanation
Indices: 1938769--1938864 Score: 165
Period size: 40 Copynumber: 2.4 Consensus size: 40
1938759 CTGCCAATTT
* *
1938769 CATGTATCGATACAATTTGTTCATGTATTGATACATTGAA
1 CATGTATCGATACAATTTGTCCATGTATCGATACATTGAA
*
1938809 CATGTATCAATACAATTTGTCCATGTATCGATACATTGAA
1 CATGTATCGATACAATTTGTCCATGTATCGATACATTGAA
1938849 CATGTATCGATACAAT
1 CATGTATCGATACAAT
1938865 GTATCGATAC
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (40 bp):
CATGTATCGATACAATTTGTCCATGTATCGATACATTGAA
Found at i:1938868 original size:13 final size:13
Alignment explanation
Indices: 1938850--1938876 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1938840 TACATTGAAC
1938850 ATGTATCGATACA
1 ATGTATCGATACA
1938863 ATGTATCGATACA
1 ATGTATCGATACA
1938876 A
1 A
1938877 GGCAGCATGT
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:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1941338 original size:13 final size:13
Alignment explanation
Indices: 1941320--1941347 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1941310 CAAATAGTAC
1941320 CAATGTATCGATA
1 CAATGTATCGATA
1941333 CAATGTATCGATA
1 CAATGTATCGATA
1941346 CA
1 CA
1941348 GGGAATGTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:1950286 original size:13 final size:13
Alignment explanation
Indices: 1950268--1950294 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1950258 ACAATATTCT
1950268 TTGTATCGATACA
1 TTGTATCGATACA
1950281 TTGTATCGATACA
1 TTGTATCGATACA
1950294 T
1 T
1950295 AGGTTACCAT
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:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1951772 original size:33 final size:33
Alignment explanation
Indices: 1951735--1951801 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 33
1951725 CGAGAGTTGA
*
1951735 TCACTTCACTTTCACAACACAT-GAGTGAGCACT
1 TCACTTCACTCTCACAACACATGGA-TGAGCACT
* *
1951768 TCACTTCACTCTCACAGCGCATGGATGAGCACT
1 TCACTTCACTCTCACAACACATGGATGAGCACT
1951801 T
1 T
1951802 TGGTGCATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 28 0.93
34 2 0.07
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (33 bp):
TCACTTCACTCTCACAACACATGGATGAGCACT
Found at i:1952172 original size:20 final size:21
Alignment explanation
Indices: 1952129--1952171 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
1952119 TTTTAAACGA
1952129 TTATCAAAGGGAGAAAATTTT
1 TTATCAAAGGGAGAAAATTTT
*
1952150 TTATCAAGGAGGAG-AAATTTT
1 TTATCAAAG-GGAGAAAATTTT
1952171 T
1 T
1952172 AAACGAGAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.40, C:0.05, G:0.21, T:0.35
Consensus pattern (21 bp):
TTATCAAAGGGAGAAAATTTT
Found at i:1952782 original size:19 final size:19
Alignment explanation
Indices: 1952757--1952813 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
1952747 TTGTATTGAT
*
1952757 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGC
* *
1952776 TCATTGTATCGATAAATGC
1 ACATTGTATCGATACATGC
1952795 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
1952814 AAACTGGCAG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (19 bp):
ACATTGTATCGATACATGC
Found at i:1952880 original size:33 final size:32
Alignment explanation
Indices: 1952843--1952907 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 32
1952833 TATCACTGTT
1952843 TGTATCGATACATG-GCACATTGTATCGATACAA
1 TGTATCGATACATGAG-A-ATTGTATCGATACAA
1952876 TGTATCGATACATGATGAATTGTATCGATACA
1 TGTATCGATACATGA-GAATTGTATCGATACA
1952908 TTACTTTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
33 28 0.93
34 1 0.03
35 1 0.03
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.32
Consensus pattern (32 bp):
TGTATCGATACATGAGAATTGTATCGATACAA
Found at i:1952881 original size:13 final size:13
Alignment explanation
Indices: 1952863--1952887 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1952853 CATGGCACAT
1952863 TGTATCGATACAA
1 TGTATCGATACAA
1952876 TGTATCGATACA
1 TGTATCGATACA
1952888 TGATGAATTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1961307 original size:19 final size:19
Alignment explanation
Indices: 1961282--1961339 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
1961272 TTGTATTGAT
*
1961282 ACATTGTATCAATACATGT
1 ACATTGTATCAATACATGG
* * *
1961301 TCATTGTATCGATATATGG
1 ACATTGTATCAATACATGG
1961320 ACAAATTGTATCAATACATG
1 AC--ATTGTATCAATACATG
1961340 AAACTAGCAG
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
19 16 0.53
21 14 0.47
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (19 bp):
ACATTGTATCAATACATGG
Found at i:1963643 original size:21 final size:21
Alignment explanation
Indices: 1963619--1963658 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
1963609 GATATTCAAA
* *
1963619 AATTGGCTGACAAAAATAATG
1 AATTAGCTAACAAAAATAATG
*
1963640 AATTAGCTAAGAAAAATAA
1 AATTAGCTAACAAAAATAA
1963659 AAACTTGCAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.55, C:0.07, G:0.15, T:0.23
Consensus pattern (21 bp):
AATTAGCTAACAAAAATAATG
Found at i:1967573 original size:13 final size:13
Alignment explanation
Indices: 1967555--1967583 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
1967545 ACAACATTCC
1967555 TTGTATCGATACA
1 TTGTATCGATACA
1967568 TTGTATCGATACA
1 TTGTATCGATACA
1967581 TTG
1 TTG
1967584 GGTACTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1972408 original size:21 final size:21
Alignment explanation
Indices: 1972375--1972419 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1972365 TTGCAAGTTG
*
1972375 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
1972397 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
1972417 AAA
1 AAA
1972420 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:1974243 original size:15 final size:15
Alignment explanation
Indices: 1974223--1974261 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
1974213 TAAAAATGTC
*
1974223 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
1974238 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
*
1974253 CCAAATGAA
1 CAAAATGAA
1974262 ATTGATGAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.51, C:0.15, G:0.21, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:1976343 original size:13 final size:13
Alignment explanation
Indices: 1976325--1976363 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
1976315 CATTTTTTCT
1976325 TTGTATCGATACA
1 TTGTATCGATACA
1976338 TTGTATCGATACA
1 TTGTATCGATACA
1976351 TTGTATCGATACA
1 TTGTATCGATACA
1976364 GGGTGATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1979750 original size:13 final size:13
Alignment explanation
Indices: 1979732--1979757 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1979722 CAATTTTTTG
1979732 TGTATCGATACAT
1 TGTATCGATACAT
1979745 TGTATCGATACAT
1 TGTATCGATACAT
1979758 ACTTTGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1979769 original size:32 final size:33
Alignment explanation
Indices: 1979712--1979775 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
1979702 TACAAGCCAA
**
1979712 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
1979745 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
1979776 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:1981695 original size:19 final size:18
Alignment explanation
Indices: 1981650--1981707 Score: 80
Period size: 19 Copynumber: 3.1 Consensus size: 18
1981640 ACTGCCAGTT
1981650 TCATGTATCGATACAATTG
1 TCATGTATCGATACAA-TG
1981669 TCCATGTATCGATACAATG
1 T-CATGTATCGATACAATG
*
1981688 ATCATGTATCAATACAATG
1 -TCATGTATCGATACAATG
1981707 T
1 T
1981708 ATCGATACAA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
18 1 0.03
19 19 0.53
20 16 0.44
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.34
Consensus pattern (18 bp):
TCATGTATCGATACAATG
Found at i:1981713 original size:32 final size:33
Alignment explanation
Indices: 1981672--1981735 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
1981662 ACAATTGTCC
* *
1981672 ATGTATCGATACAATG-ATCATGTATCAATACA
1 ATGTATCGATACAAAGCATAATGTATCAATACA
*
1981704 ATGTATCGATACAAAGCATAATGTATCGATAC
1 ATGTATCGATACAAAGCATAATGTATCAATAC
1981736 TTCTGGGTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 15 0.54
33 13 0.46
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.30
Consensus pattern (33 bp):
ATGTATCGATACAAAGCATAATGTATCAATACA
Found at i:1984267 original size:20 final size:21
Alignment explanation
Indices: 1984237--1984276 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
1984227 CATCTGGGTT
1984237 TTTCAAATGTATCGATACATG
1 TTTCAAATGTATCGATACATG
1984258 TTTC-AATGTATCGATACAT
1 TTTCAAATGTATCGATACAT
1984277 TCTAGAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (21 bp):
TTTCAAATGTATCGATACATG
Found at i:1990352 original size:33 final size:33
Alignment explanation
Indices: 1990310--1990384 Score: 116
Period size: 33 Copynumber: 2.3 Consensus size: 33
1990300 TTATAGTCGT
* *
1990310 TGTATCGATGCATTGTATCGATACAAT-TCATCA
1 TGTATCGATGCATTGTATCAATACAATGT-ACCA
1990343 TGTATCGATGCATTGTATCAATACAATGTACCA
1 TGTATCGATGCATTGTATCAATACAATGTACCA
1990376 TGTATCGAT
1 TGTATCGAT
1990385 ACAAACAGTG
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
33 38 0.97
34 1 0.03
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (33 bp):
TGTATCGATGCATTGTATCAATACAATGTACCA
Found at i:1990461 original size:19 final size:18
Alignment explanation
Indices: 1990416--1990473 Score: 80
Period size: 19 Copynumber: 3.1 Consensus size: 18
1990406 ACTGCCAGTT
1990416 TCATGTATCGATACAATTG
1 TCATGTATCGATACAA-TG
1990435 TCCATGTATCGATACAATG
1 T-CATGTATCGATACAATG
*
1990454 ATCATGTATCGATATAATG
1 -TCATGTATCGATACAATG
1990473 T
1 T
1990474 ATCCATACAA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
18 1 0.03
19 19 0.53
20 16 0.44
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.36
Consensus pattern (18 bp):
TCATGTATCGATACAATG
Found at i:1990499 original size:33 final size:32
Alignment explanation
Indices: 1990438--1990500 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 32
1990428 ACAATTGTCC
* * *
1990438 ATGTATCGATACAATGATCATGTATCGATATA
1 ATGTATCCATACAAAGATAATGTATCGATATA
1990470 ATGTATCCATACAAAGCATAATGTATCGATA
1 ATGTATCCATACAAAG-ATAATGTATCGATA
1990501 CTTCTAGGTG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 14 0.52
33 13 0.48
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.32
Consensus pattern (32 bp):
ATGTATCCATACAAAGATAATGTATCGATATA
Found at i:2007410 original size:27 final size:27
Alignment explanation
Indices: 2007388--2007439 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
2007378 AGAAAATTAT
*
2007388 TAAATTATTAAAAATATTTAAAAAAAA
1 TAAATTATTAAAAAAATTTAAAAAAAA
*
2007415 TATATTATTAAAAAAATTTAAAAAA
1 TAAATTATTAAAAAAATTTAAAAAA
2007440 TATTGACAAG
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:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (27 bp):
TAAATTATTAAAAAAATTTAAAAAAAA
Found at i:2008155 original size:33 final size:30
Alignment explanation
Indices: 2008094--2008156 Score: 81
Period size: 33 Copynumber: 2.0 Consensus size: 30
2008084 AATATATTAC
* *
2008094 ACTTTTAAAATAAAAAACGTTTATTTTAAA
1 ACTTTTAAAATAAAAAACCTTTAATTTAAA
2008124 ACTTTTAAAATAAAAGAAAACCTTTAATTTAAA
1 ACTTTTAAAAT--AA-AAAACCTTTAATTTAAA
2008157 TAATATGTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 11 0.39
32 2 0.07
33 15 0.54
ACGTcount: A:0.52, C:0.08, G:0.03, T:0.37
Consensus pattern (30 bp):
ACTTTTAAAATAAAAAACCTTTAATTTAAA
Found at i:2010423 original size:78 final size:78
Alignment explanation
Indices: 2010288--2010537 Score: 256
Period size: 78 Copynumber: 3.2 Consensus size: 78
2010278 GTGCTTCCAA
* * * * * ** * *
2010288 AAAATGACTTTAATGAACATGTGTTAACATGAAAGTGCTTGTATAACCCTAAGGACTTGGTTTTA
1 AAAATGACCTTAATGAATATGTGTTGACATAAAAGTACTTACATGACCCTAAAGACTTGGTTTTA
2010353 ATGAAAAATGACT
66 ATGAAAAATGACT
* * * *
2010366 AAAATGACCTTAATG-GTCATGTGTTGACCTAAAAGT-GTTCACATGACCTTAAAGACTTGGTTT
1 AAAATGACCTTAATGAAT-ATGTGTTGACATAAAAGTACTT-ACATGACCCTAAAGACTTGGTTT
2010429 TAAT-AAATAATGACT
64 TAATGAAA-AATGACT
** * * * *
2010444 AAAATGATATTAATGAATATGTTTTGACATAAAAGTACTTACATGACCCTAAAGATTTAGTTTTG
1 AAAATGACCTTAATGAATATGTGTTGACATAAAAGTACTTACATGACCCTAAAGACTTGGTTTTA
2010509 ATGAAAAATGACT
66 ATGAAAAATGACT
* *
2010522 -AAATAACCTTAGTGAA
1 AAAATGACCTTAATGAA
2010538 CAAATGTAGA
Statistics
Matches: 140, Mismatches: 26, Indels: 13
0.78 0.15 0.07
Matches are distributed among these distances:
77 17 0.12
78 117 0.84
79 6 0.04
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.33
Consensus pattern (78 bp):
AAAATGACCTTAATGAATATGTGTTGACATAAAAGTACTTACATGACCCTAAAGACTTGGTTTTA
ATGAAAAATGACT
Found at i:2010450 original size:147 final size:146
Alignment explanation
Indices: 2010186--2010450 Score: 311
Period size: 147 Copynumber: 1.8 Consensus size: 146
2010176 TGTTAACATG
* * * *
2010186 ACCCTAAGGATATGATTTTAATATAAAATTACTAAAATGACCTTTATGGACATGTTTTGACATGA
1 ACCCTAAGGATATGATTTTAATATAAAATGACTAAAATGACCTTAATGGACATGTGTTGACATAA
* * **
2010251 AAGTGCTAACAACACCATAAAGGCTTGGTGCTTCCAAAAAATGACTTTAATGAACATGTGTTAAC
66 AAGTGCTAACAACACCATAAAGACTTGGT-CTTCAAAAAAATGACTAAAATGAACATGTGTTAAC
2010316 ATGAAAGTGCTTGTATA
130 ATGAAAGTGCTTGTATA
* * *
2010333 ACCCTAAGGACT-TGGTTTTAATGA-AAAATGACTAAAATGACCTTAATGGTCATGTGTTGACCT
1 ACCCTAAGGA-TATGATTTTAAT-ATAAAATGACTAAAATGACCTTAATGGACATGTGTTGACAT
* * ** * *
2010396 AAAAGTGTTCACATGACCTTAAAGACTTGGT-TTTAATAAATAATGACTAAAATGA
64 AAAAGTGCTAACAACACCATAAAGACTTGGTCTTCAA-AAA-AATGACTAAAATGA
2010451 TATTAATGAA
Statistics
Matches: 97, Mismatches: 17, Indels: 8
0.80 0.14 0.07
Matches are distributed among these distances:
145 3 0.03
146 3 0.03
147 89 0.92
148 2 0.02
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (146 bp):
ACCCTAAGGATATGATTTTAATATAAAATGACTAAAATGACCTTAATGGACATGTGTTGACATAA
AAGTGCTAACAACACCATAAAGACTTGGTCTTCAAAAAAATGACTAAAATGAACATGTGTTAACA
TGAAAGTGCTTGTATA
Found at i:2010789 original size:78 final size:77
Alignment explanation
Indices: 2010687--2010840 Score: 193
Period size: 78 Copynumber: 2.0 Consensus size: 77
2010677 AAAAATTACT
* * * * *
2010687 AAAATAACTAAATGACTTTAATGGACATGTGTTGATAT-AAAAGTGCTTACATTACCCTAAAGAC
1 AAAATAACTAAATAACTTTAATGGACATATGTGGACATGAAAA-TGCTTACATGACCCTAAAGAC
2010751 TCAGTTTTGATGA
65 TCAGTTTTGATGA
* * *
2010764 AAAATTACTAAAATAACTTTAATGGACATATGTGGACATGAAAATGCTTACATGATCCTAAGGAC
1 AAAATAACT-AAATAACTTTAATGGACATATGTGGACATGAAAATGCTTACATGACCCTAAAGAC
**
2010829 TTGGTTTTGATG
65 TCAGTTTTGATG
2010841 TAGTGGTTTT
Statistics
Matches: 65, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
77 8 0.12
78 53 0.82
79 4 0.06
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.32
Consensus pattern (77 bp):
AAAATAACTAAATAACTTTAATGGACATATGTGGACATGAAAATGCTTACATGACCCTAAAGACT
CAGTTTTGATGA
Found at i:2011969 original size:3 final size:3
Alignment explanation
Indices: 2011956--2011992 Score: 65
Period size: 3 Copynumber: 12.0 Consensus size: 3
2011946 ATGCTTCAAA
2011956 ATT ATTT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
2011993 TTCGAGAATG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:2014150 original size:30 final size:29
Alignment explanation
Indices: 2014116--2014186 Score: 72
Period size: 30 Copynumber: 2.4 Consensus size: 29
2014106 GTGGAAATTA
*
2014116 CTAAAATGACTTTACAAGATGCA-TTTATGC
1 CTAAAATGACTTTA-AAG-TGAAGTTTATGC
* *
2014146 CTAAAATAACCTTAAAGTGAATGTTTATGC
1 CTAAAATGACTTTAAAGTGAA-GTTTATGC
*
2014176 CTTAAATGACT
1 CTAAAATGACT
2014187 AAAATGACAA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
28 3 0.09
29 3 0.09
30 27 0.82
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.34
Consensus pattern (29 bp):
CTAAAATGACTTTAAAGTGAAGTTTATGC
Found at i:2016557 original size:97 final size:98
Alignment explanation
Indices: 2016338--2016579 Score: 274
Period size: 97 Copynumber: 2.5 Consensus size: 98
2016328 TGAAAGATGG
* *
2016338 GGTTGGAGTATCTCCTCGGAGGAATGGGGTTGGAGTGTCCCCGATGATGACAATTTAGGCAAAAA
1 GGTTGGAGTATCTCCTCGGAAGAATGGGGTTGGAGTATCCCCGATGATGACAATTTAGGCAAAAA
* ***
2016403 ATAAAATTTAAATCTTAATGAGTTTAAAAGTGG
66 ACAAAATTTAAATCTTAATGAGTTTAAAAGCAA
* *** * *
2016436 GGTTGGAGTATCTTCTTATAAGAATGGGGTTGAAGTATCCCCGATGATGATAATTT-GAGC-AAA
1 GGTTGGAGTATCTCCTCGGAAGAATGGGGTTGGAGTATCCCCGATGATGACAATTTAG-GCAAAA
* * *
2016499 AACAAGATTTAAATCTTGA-GAAGTTTAAGAGCAA
65 AACAAAATTTAAATCTTAATG-AGTTTAAAAGCAA
* * * *
2016533 GGTTGGACTATCCCCTCGGAAGAATAGGGTTGGAGTATCCTCGATGA
1 GGTTGGAGTATCTCCTCGGAAGAATGGGGTTGGAGTATCCCCGATGA
2016580 ATAAAATTTA
Statistics
Matches: 118, Mismatches: 24, Indels: 5
0.80 0.16 0.03
Matches are distributed among these distances:
96 1 0.01
97 67 0.57
98 50 0.42
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.29
Consensus pattern (98 bp):
GGTTGGAGTATCTCCTCGGAAGAATGGGGTTGGAGTATCCCCGATGATGACAATTTAGGCAAAAA
ACAAAATTTAAATCTTAATGAGTTTAAAAGCAA
Found at i:2018410 original size:20 final size:20
Alignment explanation
Indices: 2018374--2018424 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
2018364 TGCAATTTGT
*
2018374 ATCGATACAACAAGTGAATGA
1 ATCGATAC-ATAAGTGAATGA
* *
2018395 ATTGATACATAAGTGAATGT
1 ATCGATACATAAGTGAATGA
2018415 ATCGATACAT
1 ATCGATACAT
2018425 TTTTGAAATG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 19 0.73
21 7 0.27
ACGTcount: A:0.43, C:0.12, G:0.18, T:0.27
Consensus pattern (20 bp):
ATCGATACATAAGTGAATGA
Found at i:2023769 original size:79 final size:77
Alignment explanation
Indices: 2023671--2024072 Score: 296
Period size: 79 Copynumber: 5.1 Consensus size: 77
2023661 TATTTTGGAG
* * *
2023671 ATAAAAATGGGGTTGGAGTATCCCTCAGAAATAACGGGGTTTGAGTATCCTCGATTGTGAAAAA-
1 ATAAAATTAGGGTTGGAGTATCCCTCA-AAATAACGAGGTTTGAGTATCCTCGATTGTGAAAAAT
*
2023735 TCGATGTTTTAGAA
65 TAG-TGTTTTAGAA
* * * *
2023749 ATAAAAATTAGGGTTAGAGTATCCCCTCCAAAATAACGAGG-TTGAAATATCC-CTGATGGTGGA
1 AT-AAAATTAGGGTTGGAGTAT-CCCT-CAAAATAACGAGGTTTG-AGTATCCTC-GATTGTGAA
2023812 AAATTAGTGTTTTAGAA
61 AAATTAGTGTTTTAGAA
* * * *
2023829 ATAAAACTAGGGTTGGAGTATCCCTTCAAAAATAATGATGTTAGAGTAT-CTCCGATTGTGAAAA
1 ATAAAATTAGGGTTGGAGTATCCC-TC-AAAATAACGAGGTTTGAGTATCCT-CGATTGTG-AAA
* *
2023893 AATTAGTATTTTGGAA
62 AATTAGTGTTTTAGAA
* ** * * * * *
2023909 ATAAAATTGGGGTTGGAGTATCCCCTCGGTAATAACTAGGTTGGAGTAT-CTCCGATTATGGACA
1 ATAAAATTAGGGTTGGAGTAT-CCCTC-AAAATAACGAGGTTTGAGTATCCT-CGATTGTGAAAA
2023973 ATTAGTGTTTT-GAAA
63 ATTAGTGTTTTAG-AA
** * * * * * * *
2023988 ATAAAACCAAGGTTGGAGTATCCCCTCGAAAACAATGGGGTTAGAGAATCCTCGATGGT-AGAAA
1 ATAAAATTAGGGTTGGAGTAT-CCCTC-AAAATAACGAGGTTTGAGTATCCTCGATTGTGA-AAA
* *
2024052 ATTGGTATTTTAGAA
63 ATTAGTGTTTTAGAA
2024067 ATAAAA
1 ATAAAA
2024073 ACATGAATGA
Statistics
Matches: 258, Mismatches: 49, Indels: 33
0.76 0.14 0.10
Matches are distributed among these distances:
78 8 0.03
79 133 0.52
80 110 0.43
81 7 0.03
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.30
Consensus pattern (77 bp):
ATAAAATTAGGGTTGGAGTATCCCTCAAAATAACGAGGTTTGAGTATCCTCGATTGTGAAAAATT
AGTGTTTTAGAA
Found at i:2023922 original size:159 final size:158
Alignment explanation
Indices: 2023671--2024072 Score: 438
Period size: 159 Copynumber: 2.5 Consensus size: 158
2023661 TATTTTGGAG
* * * * *
2023671 ATAAAAATGGGGTTGGAGTATCCCTCAGAAATAACGGGGTTTGAGTATCCTCGATTGTG-AAAAA
1 ATAAAACTAGGGTTGGAGTATCCCTCAAAAATAATGGGGTTAGAGTATCCTCGATTGTGAAAAAA
* *
2023735 -TCGATGTTTTAGAAATAAAAATTAGGGTTAGAGTATCCCCTCCAAAATAACGAGGTTGAAATAT
66 TTAG-TATTTTAGAAAT-AAAATTAGGGTTAGAGTATCCCCTCCAAAATAACGAGGTTGAAATAT
*
2023799 C-CCTGATGGTGGAAAATTAGTGTTTT-AGAA
129 CTCC-GATGATGGAAAATTAGTGTTTTGA-AA
**
2023829 ATAAAACTAGGGTTGGAGTATCCCTTCAAAAATAATGATGTTAGAGTAT-CTCCGATTGTGAAAA
1 ATAAAACTAGGGTTGGAGTATCCC-TCAAAAATAATGGGGTTAGAGTATCCT-CGATTGTGAAAA
* * * *** * * *
2023893 AATTAGTATTTTGGAAATAAAATTGGGGTTGGAGTATCCCCTCGGTAATAACTAGGTTGGAGTAT
64 AATTAGTATTTTAGAAATAAAATTAGGGTTAGAGTATCCCCTCCAAAATAACGAGGTTGAAATAT
* *
2023958 CTCCGATTATGGACAATTAGTGTTTTGAAA
129 CTCCGATGATGGAAAATTAGTGTTTTGAAA
* * * * * * *
2023988 ATAAAACCAAGGTTGGAGTATCCCCTCGAAAACAATGGGGTTAGAGAATCCTCGATGGT-AGAAA
1 ATAAAACTAGGGTTGGAGTAT-CCCTCAAAAATAATGGGGTTAGAGTATCCTCGATTGTGAAAAA
*
2024052 ATTGGTATTTTAGAAATAAAA
65 ATTAGTATTTTAGAAATAAAA
2024073 ACATGAATGA
Statistics
Matches: 204, Mismatches: 32, Indels: 16
0.81 0.13 0.06
Matches are distributed among these distances:
158 47 0.23
159 132 0.65
160 23 0.11
161 2 0.01
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.30
Consensus pattern (158 bp):
ATAAAACTAGGGTTGGAGTATCCCTCAAAAATAATGGGGTTAGAGTATCCTCGATTGTGAAAAAA
TTAGTATTTTAGAAATAAAATTAGGGTTAGAGTATCCCCTCCAAAATAACGAGGTTGAAATATCT
CCGATGATGGAAAATTAGTGTTTTGAAA
Found at i:2026496 original size:19 final size:19
Alignment explanation
Indices: 2026450--2026521 Score: 92
Period size: 19 Copynumber: 3.7 Consensus size: 19
2026440 TTTCAACAAT
*
2026450 TTGTATCGATACA-AACTG
1 TTGTATCGATACATAAGTG
2026468 TAACTGTATCGATACATAAGTG
1 T---TGTATCGATACATAAGTG
*
2026490 TTGTATCGATACATAAGTT
1 TTGTATCGATACATAAGTG
2026509 TTGTATCGATACA
1 TTGTATCGATACA
2026522 ATGTATCGCT
Statistics
Matches: 48, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
18 1 0.02
19 30 0.62
21 12 0.25
22 5 0.10
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:2026650 original size:20 final size:20
Alignment explanation
Indices: 2026625--2026678 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 20
2026615 ATTTGCCCAG
2026625 ATGTATCGATACATTATGC-A
1 ATGTATCGATACATT-TGCAA
*
2026645 ATGTATTGATACA-TTGCATA
1 ATGTATCGATACATTTGCA-A
2026665 ATGTATCGATACAT
1 ATGTATCGATACAT
2026679 GCAAGCAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
18 3 0.10
19 1 0.03
20 25 0.86
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACATTTGCAA
Found at i:2026660 original size:72 final size:73
Alignment explanation
Indices: 2026552--2026690 Score: 201
Period size: 72 Copynumber: 1.9 Consensus size: 73
2026542 TACCAAGAAA
* * *
2026552 ATGTATCGATACATTACTAAAATGTATCGATACATTGACCT-TTGTATCGATACATGCAGGCAAA
1 ATGTATCGATACATTACTAAAATGTATCGATACATTG-CATAATGTATCGATACATGCAAGCAAA
2026616 TTTGCCCAG
65 TTTGCCCAG
** *
2026625 ATGTATCGATACATTA-TGCAATGTATTGATACATTGCATAATGTATCGATACATGCAAGCAAAT
1 ATGTATCGATACATTACTAAAATGTATCGATACATTGCATAATGTATCGATACATGCAAGCAAAT
2026689 TT
66 TT
2026691 TCATATTTCG
Statistics
Matches: 59, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
71 2 0.03
72 41 0.69
73 16 0.27
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.33
Consensus pattern (73 bp):
ATGTATCGATACATTACTAAAATGTATCGATACATTGCATAATGTATCGATACATGCAAGCAAAT
TTGCCCAG
Found at i:2040494 original size:28 final size:28
Alignment explanation
Indices: 2040461--2040550 Score: 101
Period size: 28 Copynumber: 3.1 Consensus size: 28
2040451 CATCCTCCAC
*
2040461 AAAAAAAAGAAGAAAAAACAACAACAAA
1 AAAAAAAAAAAGAAAAAACAACAACAAA
*
2040489 ACAAAAAAAAAGAAAAAA-AACAAAACAAA
1 AAAAAAAAAAAGAAAAAACAAC--AACAAA
*
2040518 AAAAATAAACAAACAAAAAAACAACAACAAA
1 AAAAA-AAA-AAA-GAAAAAACAACAACAAA
2040549 AA
1 AA
2040551 GGGTCCGGAT
Statistics
Matches: 52, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
27 3 0.06
28 16 0.31
29 10 0.19
30 3 0.06
31 11 0.21
32 6 0.12
33 3 0.06
ACGTcount: A:0.83, C:0.12, G:0.03, T:0.01
Consensus pattern (28 bp):
AAAAAAAAAAAGAAAAAACAACAACAAA
Found at i:2040496 original size:18 final size:17
Alignment explanation
Indices: 2040459--2040549 Score: 59
Period size: 18 Copynumber: 5.4 Consensus size: 17
2040449 GGCATCCTCC
*
2040459 ACAAAA-AAAAGAAGAAA
1 ACAAAACAAAA-AACAAA
2040476 A-AACAACAACAAAACAAA
1 ACAA-AACAA-AAAACAAA
*
2040494 A-AAAA-AGAAAA-AAA
1 ACAAAACAAAAAACAAA
*
2040508 ACAAAACAAAAAAAATAA
1 ACAAAACAAAAAACA-AA
2040526 AC-AAACAAAAAAACAACA
1 ACAAAAC-AAAAAACAA-A
2040544 ACAAAA
1 ACAAAA
2040550 AGGGTCCGGA
Statistics
Matches: 60, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
14 4 0.07
15 8 0.13
16 8 0.13
17 11 0.18
18 24 0.40
19 5 0.08
ACGTcount: A:0.82, C:0.13, G:0.03, T:0.01
Consensus pattern (17 bp):
ACAAAACAAAAAACAAA
Found at i:2040519 original size:41 final size:41
Alignment explanation
Indices: 2040461--2040538 Score: 83
Period size: 40 Copynumber: 1.9 Consensus size: 41
2040451 CATCCTCCAC
* *
2040461 AAAAAAAAGAAGAAAAAACAACAACAA-AACAAAAAAAAAG
1 AAAAAAAACAAGAAAAAACAAAAACAACAACAAAAAAAAAG
2040501 AAAAAAAACAA-AACAAAA-AAAATA-AACAAACAAAAAAA
1 AAAAAAAACAAGAA-AAAACAAAA-ACAAC-AACAAAAAAA
2040539 CAACAACAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
39 7 0.22
40 15 0.47
41 10 0.31
ACGTcount: A:0.85, C:0.10, G:0.04, T:0.01
Consensus pattern (41 bp):
AAAAAAAACAAGAAAAAACAAAAACAACAACAAAAAAAAAG
Found at i:2040537 original size:24 final size:24
Alignment explanation
Indices: 2040459--2040550 Score: 89
Period size: 24 Copynumber: 3.8 Consensus size: 24
2040449 GGCATCCTCC
*
2040459 ACAAAAAAAAGAAGAAAAAAC-AACA
1 ACAAAACAAA-AA-AAAAAACAAACA
*
2040484 ACAAAACAAAAAAAAAGAA-AAAAA
1 ACAAAACAAAAAAAAA-AACAAACA
2040508 ACAAAACAAAAAAAATAAACAAACA
1 ACAAAACAAAAAAAA-AAACAAACA
* * *
2040533 AAAAAACAACAACAAAAA
1 ACAAAACAAAAAAAAAAA
2040551 GGGTCCGGAT
Statistics
Matches: 57, Mismatches: 6, Indels: 9
0.79 0.08 0.12
Matches are distributed among these distances:
23 4 0.07
24 27 0.47
25 26 0.46
ACGTcount: A:0.83, C:0.13, G:0.03, T:0.01
Consensus pattern (24 bp):
ACAAAACAAAAAAAAAAACAAACA
Found at i:2040550 original size:30 final size:29
Alignment explanation
Indices: 2040461--2040550 Score: 121
Period size: 30 Copynumber: 3.0 Consensus size: 29
2040451 CATCCTCCAC
2040461 AAAAAAAAGAAGAAAAAACAACAACAAAACA
1 AAAAAAAAGAA-AAAAAACAACAACAAAA-A
2040492 AAAAAAAAGAAAAAAAACAA-AACAAAAA
1 AAAAAAAAGAAAAAAAACAACAACAAAAA
2040520 AAATAAACAA-ACAAAAAAACAACAACAAAAA
1 AAA-AAA-AAGA-AAAAAAACAACAACAAAAA
2040551 GGGTCCGGAT
Statistics
Matches: 55, Mismatches: 0, Indels: 8
0.87 0.00 0.13
Matches are distributed among these distances:
28 4 0.07
29 11 0.20
30 21 0.38
31 19 0.35
ACGTcount: A:0.83, C:0.12, G:0.03, T:0.01
Consensus pattern (29 bp):
AAAAAAAAGAAAAAAAACAACAACAAAAA
Found at i:2042078 original size:57 final size:56
Alignment explanation
Indices: 2041988--2042338 Score: 327
Period size: 57 Copynumber: 6.2 Consensus size: 56
2041978 CACCTTTTCA
* * *
2041988 AAAGCCCACAAATCAGTGGCAACC--TCCAAAGCCCACAAGTCAGTGGCAACCTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTCAAAAGCCCACAAGTCAGTGGCAACCTTC
* * *
2042042 AGAAGCCCATAAGTCAATGGCACCCTTTCAAAAGCCCACAAGTCAGTGGCCACCTTC
1 A-AAGCCCACAAGTCAGTGGCACCCTTTCAAAAGCCCACAAGTCAGTGGCAACCTTC
* * * *
2042099 AAAAGCCCACAAATCAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTC
1 -AAAGCCCACAAGTCAGTGGCACCC-TTTCAAAAGCCCACAAGTCAGTGGCAAC-CTTC
* * * * * * *
2042158 TAAAGCCCACAAGCCAGTGGCAACC-TTCAAAAGTCCACAACTCCGTGGCACCCTTT
1 -AAAGCCCACAAGTCAGTGGCACCCTTTCAAAAGCCCACAAGTCAGTGGCAACCTTC
* * * *
2042214 TAAGCCCACAAGTCGGTGGCACCCCTTTC-AAAGCCCACAAGTCGGTGGCACCCCTTTC
1 AAAGCCCACAAGTCAGTGGCA-CCCTTTCAAAAGCCCACAAGTCAGTGGCA-ACC-TTC
* * * **
2042272 AAAGCCCATAAGTCAGTGGCAACC-TTCAAAAGCACACAAGTTGGT-GCAACCCTTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTCAAAAGCCCACAAGTCAGTGGCAA-CC-TTC
2042328 AAAAGCCCACA
1 -AAAGCCCACA
2042339 CAAGCTGGTG
Statistics
Matches: 244, Mismatches: 40, Indels: 23
0.79 0.13 0.07
Matches are distributed among these distances:
54 1 0.00
55 37 0.15
56 34 0.14
57 102 0.42
58 46 0.19
59 24 0.10
ACGTcount: A:0.31, C:0.34, G:0.17, T:0.18
Consensus pattern (56 bp):
AAAGCCCACAAGTCAGTGGCACCCTTTCAAAAGCCCACAAGTCAGTGGCAACCTTC
Found at i:2042084 original size:29 final size:29
Alignment explanation
Indices: 2041978--2042338 Score: 359
Period size: 29 Copynumber: 12.7 Consensus size: 29
2041968 AGACATGCCT
* *
2041978 CACCTTTTCAAAAGCCCACAAATCAGTGG
1 CACCCTTTCAAAAGCCCACAAGTCAGTGG
* *
2042007 CAACC--TCCAAAGCCCACAAGTCAGTGG
1 CACCCTTTCAAAAGCCCACAAGTCAGTGG
* * * *
2042034 CAACC-TTCAGAAGCCCATAAGTCAATGG
1 CACCCTTTCAAAAGCCCACAAGTCAGTGG
2042062 CACCCTTTCAAAAGCCCACAAGTCAGTGG
1 CACCCTTTCAAAAGCCCACAAGTCAGTGG
*
2042091 C-CACC-TTCAAAAGCCCACAAATCAGTGG
1 CAC-CCTTTCAAAAGCCCACAAGTCAGTGG
*
2042119 CACCCTTTTCCAAAGCCCACAAGTCAGTGG
1 CACCC-TTTCAAAAGCCCACAAGTCAGTGG
* * * *
2042149 CATCTTTTCTAAAGCCCACAAGCCAGTGG
1 CACCCTTTCAAAAGCCCACAAGTCAGTGG
* * * *
2042178 CAACC-TTCAAAAGTCCACAACTCCGTGG
1 CACCCTTTCAAAAGCCCACAAGTCAGTGG
* *
2042206 CACCCTTT--TAAGCCCACAAGTCGGTGG
1 CACCCTTTCAAAAGCCCACAAGTCAGTGG
*
2042233 CACCCCTTTC-AAAGCCCACAAGTCGGTGG
1 CA-CCCTTTCAAAAGCCCACAAGTCAGTGG
*
2042262 CACCCCTTTC-AAAGCCCATAAGTCAGTGG
1 CA-CCCTTTCAAAAGCCCACAAGTCAGTGG
* * **
2042291 CAACC-TTCAAAAGCACACAAGTTGGT-G
1 CACCCTTTCAAAAGCCCACAAGTCAGTGG
2042318 CAACCCTTTCAAAAGCCCACA
1 C-ACCCTTTCAAAAGCCCACA
2042339 CAAGCTGGTG
Statistics
Matches: 279, Mismatches: 41, Indels: 24
0.81 0.12 0.07
Matches are distributed among these distances:
27 47 0.17
28 94 0.34
29 114 0.41
30 24 0.09
ACGTcount: A:0.31, C:0.34, G:0.17, T:0.18
Consensus pattern (29 bp):
CACCCTTTCAAAAGCCCACAAGTCAGTGG
Found at i:2042527 original size:49 final size:48
Alignment explanation
Indices: 2042407--2042633 Score: 172
Period size: 49 Copynumber: 4.6 Consensus size: 48
2042397 CACCTTTAAA
* * * ** * **
2042407 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTGTCTTTAAAA
1 CCAATGTCGTTGGCCTTGAATCAGCACATTGGCACTTCATCCTTAAGT
* *
2042455 CCAATGTCATTAGCCTTGAATCAGCACATTGGCACCTTCATCCTTAAGT
1 CCAATGTCGTTGGCCTTGAATCAGCACATTGGCA-CTTCATCCTTAAGT
* ** * *
2042504 CCAATATCGTTGGCCTTGAATCAGCGTATTGACACCTTTAACATTCC-TAAGC
1 CCAATGTCGTTGGCCTTGAATCAGCACATTGGCA-C-TT--CA-TCCTTAAGT
** * *
2042556 CCAATGTCGTTGGCCTTGTCTCAGCACCTTGGCA-TTC-TTCTTCAAGT
1 CCAATGTCGTTGGCCTTGAATCAGCACATTGGCACTTCATCCTT-AAGT
* * *
2042603 CTAATGTCGTTGGCCATGAATCAGCGCATTG
1 CCAATGTCGTTGGCCTTGAATCAGCACATTG
2042634 TCATTCTTTG
Statistics
Matches: 140, Mismatches: 32, Indels: 15
0.75 0.17 0.08
Matches are distributed among these distances:
45 2 0.01
46 1 0.01
47 29 0.21
48 29 0.21
49 41 0.29
50 2 0.01
52 33 0.24
53 3 0.02
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (48 bp):
CCAATGTCGTTGGCCTTGAATCAGCACATTGGCACTTCATCCTTAAGT
Found at i:2043414 original size:19 final size:18
Alignment explanation
Indices: 2043390--2043452 Score: 73
Period size: 19 Copynumber: 3.7 Consensus size: 18
2043380 AAACTGTAAC
2043390 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGT-T
2043409 TGTATCGATAC--AA---
1 TGTATCGATACATAAGTT
2043422 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAG-TT
2043441 TGTATCGATACA
1 TGTATCGATACA
2043453 ATTTATTGCT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
15 2 0.05
17 2 0.05
19 23 0.61
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (18 bp):
TGTATCGATACATAAGTT
Found at i:2043427 original size:13 final size:13
Alignment explanation
Indices: 2043409--2043433 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2043399 ACATAAGTGT
2043409 TGTATCGATACAA
1 TGTATCGATACAA
2043422 TGTATCGATACA
1 TGTATCGATACA
2043434 TAAGTTTTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2043431 original size:32 final size:32
Alignment explanation
Indices: 2043390--2043454 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
2043380 AAACTGTAAC
2043390 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
2043422 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
2043454 T
1 T
2043455 TTATTGCTAC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:2048939 original size:13 final size:13
Alignment explanation
Indices: 2048912--2048949 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
2048902 CGAGAATGGA
2048912 TTTTTGTTGAGTG
1 TTTTTGTTGAGTG
2048925 TTTTGTGTTGA-TG
1 TTTT-TGTTGAGTG
2048938 TTTTTGGTTGAG
1 TTTTT-GTTGAG
2048950 ATATGGTTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 1 0.05
13 15 0.68
14 6 0.27
ACGTcount: A:0.08, C:0.00, G:0.32, T:0.61
Consensus pattern (13 bp):
TTTTTGTTGAGTG
Found at i:2050766 original size:19 final size:20
Alignment explanation
Indices: 2050721--2050768 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
2050711 CTGCCAAATT
* *
2050721 CATGTATCAATACAATTGAG
1 CATGTATCGATACAATGGAG
*
2050741 TATGTATCGATACAA-GGAG
1 CATGTATCGATACAATGGAG
2050760 CATGTATCG
1 CATGTATCG
2050769 TATCGATACA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 11 0.46
20 13 0.54
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (20 bp):
CATGTATCGATACAATGGAG
Found at i:2057658 original size:32 final size:31
Alignment explanation
Indices: 2057557--2057838 Score: 111
Period size: 28 Copynumber: 9.6 Consensus size: 31
2057547 AAAGTGGTGA
* *
2057557 TTTGAAAAGGGTTGCCACTAACTTGTATGGGCC
1 TTTGAAAAAGGTTGCCACTAACTTGTGT-GG-C
* * **
2057590 TTTAAAAATAAG-TGCCACCGACTTGTGTGGGC
1 TTTGAAAA-AGGTTGCCACTAACTTGTGT-GGC
2057622 -TTGAAAAAGGTTGCCACTAACTTGTGTGGAC
1 TTTGAAAAAGGTTGCCACTAACTTGTGTGG-C
* *
2057653 TTTG-AAAAGAGATGCCACTAACCTGTG-GGC
1 TTTGAAAAAG-GTTGCCACTAACTTGTGTGGC
* * *
2057683 TTTG--GAAGGGTGCCACCAACTTGTG-GGC
1 TTTGAAAAAGGTTGCCACTAACTTGTGTGGC
* * **
2057711 -TT-AAAAAGGGTGCCGCTTGCTTGTG-GGC
1 TTTGAAAAAGGTTGCCACTAACTTGTGTGGC
* * * * *
2057739 TTCG--GAAGGGTGCCACTGACTTGTG-GTC
1 TTTGAAAAAGGTTGCCACTAACTTGTGTGGC
* * **
2057767 -TT-AAAAAGGGTACCACTTGCTTGTG-GGC
1 TTTGAAAAAGGTTGCCACTAACTTGTGTGGC
* * *
2057795 TTTGAAAGA-G-TGCCACTGACTTATG-GGC
1 TTTGAAAAAGGTTGCCACTAACTTGTGTGGC
*
2057823 -TT-AAAAAGGATGCCAC
1 TTTGAAAAAGGTTGCCAC
2057839 CTGCTACTAC
Statistics
Matches: 195, Mismatches: 39, Indels: 35
0.72 0.14 0.13
Matches are distributed among these distances:
26 4 0.02
27 6 0.03
28 94 0.48
29 7 0.04
30 13 0.07
31 28 0.14
32 19 0.10
33 23 0.12
34 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (31 bp):
TTTGAAAAAGGTTGCCACTAACTTGTGTGGC
Done.