Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007931.1 Hibiscus syriacus cultivar Beakdansim tig00110339_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2341804
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 11 of 12
Found at i:2069970 original size:33 final size:31
Alignment explanation
Indices: 2069915--2069992 Score: 79
Period size: 30 Copynumber: 2.5 Consensus size: 31
2069905 TAATCCTTAA
*
2069915 AAATTTTT-AATATTCTTAATTAAACACCTCCC
1 AAATTTTTAAAAATTCTTAATT-AA-ACCTCCC
* *
2069947 ATAATTTTTAAAAATTC-TCATTAAACCTCTC
1 A-AATTTTTAAAAATTCTTAATTAAACCTCCC
*
2069978 AAATTTTCAAAAATT
1 AAATTTTTAAAAATT
2069993 TTAGTTAGAG
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
30 13 0.32
31 7 0.17
32 3 0.08
33 11 0.28
34 6 0.15
ACGTcount: A:0.41, C:0.18, G:0.00, T:0.41
Consensus pattern (31 bp):
AAATTTTTAAAAATTCTTAATTAAACCTCCC
Found at i:2070444 original size:16 final size:17
Alignment explanation
Indices: 2070418--2070449 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
2070408 CTACAAGGGA
2070418 ATATATAATGGAATTTG
1 ATATATAATGGAATTTG
2070435 ATAT-TAATGGAATTT
1 ATATATAATGGAATTT
2070450 CTGAGGGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.41, C:0.00, G:0.16, T:0.44
Consensus pattern (17 bp):
ATATATAATGGAATTTG
Found at i:2071102 original size:2 final size:2
Alignment explanation
Indices: 2071095--2071128 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
2071085 CACAAACGCA
2071095 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
2071129 ATCATGGAAG
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:2072911 original size:9 final size:9
Alignment explanation
Indices: 2072897--2072927 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
2072887 ACCTGACCGG
2072897 CCGGTTCAA
1 CCGGTTCAA
2072906 CCGGTTCAA
1 CCGGTTCAA
*
2072915 CCGGTTGAA
1 CCGGTTCAA
2072924 CCGG
1 CCGG
2072928 GAACCAGTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.19, C:0.32, G:0.29, T:0.19
Consensus pattern (9 bp):
CCGGTTCAA
Found at i:2075675 original size:15 final size:15
Alignment explanation
Indices: 2075655--2075684 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2075645 GATTAGTATC
2075655 TTTCCTAACTTAGAG
1 TTTCCTAACTTAGAG
*
2075670 TTTCCTAATTTAGAG
1 TTTCCTAACTTAGAG
2075685 ACATAGTTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.17, G:0.13, T:0.43
Consensus pattern (15 bp):
TTTCCTAACTTAGAG
Found at i:2081401 original size:2 final size:2
Alignment explanation
Indices: 2081394--2081424 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2081384 GGGGAAAATA
2081394 AT AT AT 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 AT AT AT A
2081425 AAAGTAGAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2098836 original size:21 final size:20
Alignment explanation
Indices: 2098799--2098841 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
2098789 TGCATATCAA
*
2098799 TTTCCAACTCCTGAATTTATT
1 TTTCCAACTACTGAATTT-TT
2098820 TTTCCAAGCTACT-AATTTTT
1 TTTCCAA-CTACTGAATTTTT
2098840 TT
1 TT
2098842 GGGAAGCTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 4 0.20
21 12 0.60
22 4 0.20
ACGTcount: A:0.23, C:0.21, G:0.05, T:0.51
Consensus pattern (20 bp):
TTTCCAACTACTGAATTTTT
Found at i:2117783 original size:356 final size:356
Alignment explanation
Indices: 2117130--2117844 Score: 1351
Period size: 356 Copynumber: 2.0 Consensus size: 356
2117120 CATTAAAAAA
*
2117130 ACTAAATAACTGAAAATTAATACTATTTTTCAGCTGGTTGAATTCTTTCAATGGATTAACAAACT
1 ACTAAATAACTGAAAATTAATACTATTTTTCAGCTGGTTGAATTCTTTCAATGGATTAACAAACA
* *
2117195 CTACCCTAGTCTCTCAGCAGTATCTAAAGGATTTATTCAAATTTGATCCAAAGAATCAAGAATCT
66 CTACCCTAGTCTCTCAGCAGTATCTAAAGGATATATTCAAATTTGATCCAAAGAATCAAGAACCT
*
2117260 GATAAAAAAAAAAGACTACAATACAGAAGAAACACTCCTACTATATGAGACAGACACTATGACTT
131 GATAAAAAAAAAAGACTACAATACAGAAGAAACACTCCTACTATATGAGACAGACACTATGAATT
* * *
2117325 TGATTAAGCAAAGCAAGACCAAACATGCCCCTTTACAAGAGACCCGCAATTAACTCCTAATGTAA
196 TGATTAAGCAAAGCAAGACCAAACATGCCCCTTTACAAGAGACCCGCAATTAACTCATAACGGAA
2117390 TAATCTCCATTAACAAAAACCAGAACAAGAAATACAAGGATAAGAAAGTACTAAAAAGAGTACAA
261 TAATCTCCATTAACAAAAACCAGAACAAGAAATACAAGGATAAGAAAGTACTAAAAAGAGTACAA
2117455 TCAAGAATATGATTAAAAAAAGGACTAACCT
326 TCAAGAATATGATTAAAAAAAGGACTAACCT
2117486 ACTAAATAACTGAAAATTAATACTATTTTTCAGCTGGTTGAATTCTTTCAATGGATTAACAAACA
1 ACTAAATAACTGAAAATTAATACTATTTTTCAGCTGGTTGAATTCTTTCAATGGATTAACAAACA
2117551 CTACCCTAGTCTCTCAGCAGTATCTAAAGGATATATTCAAATTTGATCCAAAGAATCAAGAACCT
66 CTACCCTAGTCTCTCAGCAGTATCTAAAGGATATATTCAAATTTGATCCAAAGAATCAAGAACCT
2117616 GA-AGAAAAAAAAAGACTACAATACAGAAGAAACACTCCTACTATATGAGACAGACACTATGAAT
131 GATA-AAAAAAAAAGACTACAATACAGAAGAAACACTCCTACTATATGAGACAGACACTATGAAT
2117680 TTGATTAAGCAAAGCAAGACCAAACATGCCCCTTTACAAGAGACCCGCAATTAACTCATAACGGA
195 TTGATTAAGCAAAGCAAGACCAAACATGCCCCTTTACAAGAGACCCGCAATTAACTCATAACGGA
2117745 ATAATCTCCATTAACAAAAACCAGAACAAGAAATACAAGGATAAGAAAGTACTAAAAAGAGTACA
260 ATAATCTCCATTAACAAAAACCAGAACAAGAAATACAAGGATAAGAAAGTACTAAAAAGAGTACA
2117810 ATCAAGAATATGATTAAAAAAAGGACTAACCT
325 ATCAAGAATATGATTAAAAAAAGGACTAACCT
2117842 ACT
1 ACT
2117845 CTTCCCGGAA
Statistics
Matches: 351, Mismatches: 7, Indels: 2
0.98 0.02 0.01
Matches are distributed among these distances:
355 1 0.00
356 350 1.00
ACGTcount: A:0.45, C:0.19, G:0.13, T:0.23
Consensus pattern (356 bp):
ACTAAATAACTGAAAATTAATACTATTTTTCAGCTGGTTGAATTCTTTCAATGGATTAACAAACA
CTACCCTAGTCTCTCAGCAGTATCTAAAGGATATATTCAAATTTGATCCAAAGAATCAAGAACCT
GATAAAAAAAAAAGACTACAATACAGAAGAAACACTCCTACTATATGAGACAGACACTATGAATT
TGATTAAGCAAAGCAAGACCAAACATGCCCCTTTACAAGAGACCCGCAATTAACTCATAACGGAA
TAATCTCCATTAACAAAAACCAGAACAAGAAATACAAGGATAAGAAAGTACTAAAAAGAGTACAA
TCAAGAATATGATTAAAAAAAGGACTAACCT
Found at i:2120533 original size:20 final size:22
Alignment explanation
Indices: 2120504--2120544 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
2120494 TTAAATTAAT
*
2120504 ATTATTATATA-ATAT-TATAA
1 ATTATAATATATATATATATAA
2120524 ATTATAATATATATATATATA
1 ATTATAATATATATATATATA
2120545 TACATTTTAT
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
ATTATAATATATATATATATAA
Found at i:2120538 original size:26 final size:27
Alignment explanation
Indices: 2120495--2120545 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
2120485 TTCGTCTGTT
*
2120495 TAAATTAATATTATTATATA-ATATTA
1 TAAATTAATAATATTATATATATATTA
2120521 TAAATT-ATAATATATATATATATAT
1 TAAATTAATAATAT-TATATATATAT
2120546 ACATTTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 6 0.27
26 12 0.55
27 4 0.18
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (27 bp):
TAAATTAATAATATTATATATATATTA
Found at i:2121653 original size:22 final size:23
Alignment explanation
Indices: 2121628--2121673 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
2121618 AATTTCTTTT
*
2121628 TATTTATTTAAATATTA-TATTA
1 TATTTAATTAAATATTATTATTA
*
2121650 TATTTAATTATATATTATTATTA
1 TATTTAATTAAATATTATTATTA
2121673 T
1 T
2121674 TATTATTGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 15 0.71
23 6 0.29
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (23 bp):
TATTTAATTAAATATTATTATTA
Found at i:2121663 original size:17 final size:18
Alignment explanation
Indices: 2121628--2121667 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
2121618 AATTTCTTTT
2121628 TATT-TATTTAAATATTA
1 TATTATATTTAAATATTA
*
2121645 TATTATATTTAATTA-TA
1 TATTATATTTAAATATTA
2121662 TATTAT
1 TATTAT
2121668 TATTATTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TATTATATTTAAATATTA
Found at i:2121671 original size:18 final size:19
Alignment explanation
Indices: 2121631--2121671 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
2121621 TTCTTTTTAT
2121631 TTATTTAAATATTATATTA
1 TTATTTAAATATTATATTA
*
2121650 -TATTTAATTA-TATATTA
1 TTATTTAAATATTATATTA
2121667 TTATT
1 TTATT
2121672 ATTATTATTG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
TTATTTAAATATTATATTA
Found at i:2121799 original size:9 final size:9
Alignment explanation
Indices: 2121781--2121990 Score: 86
Period size: 9 Copynumber: 22.6 Consensus size: 9
2121771 TTATTTCATG
2121781 TTTA-TTTT
1 TTTATTTTT
2121789 TTTA-TTTT
1 TTTATTTTT
2121797 TTTATCTTTAT
1 TTTAT-TTT-T
*
2121808 TTT-TTTATC
1 TTTATTT-TT
*
2121817 TTTATTTTA
1 TTTATTTTT
**
2121826 TTTATTTGG
1 TTTATTTTT
*
2121835 TTTATCTTT
1 TTTATTTTT
* *
2121844 ATT-TTATT
1 TTTATTTTT
*
2121852 TTTATTTTC
1 TTTATTTTT
2121861 TTTATCTTTAT
1 TTTAT-TTT-T
* *
2121872 TTTATATAT
1 TTTATTTTT
*
2121881 TTTATTTGT
1 TTTATTTTT
* * *
2121890 TTTGTATAT
1 TTTATTTTT
*
2121899 ATTATTTTT
1 TTTATTTTT
2121908 ACTATTATTCTTT
1 --T-TTATT-TTT
*
2121921 TTTATTATT
1 TTTATTTTT
* *
2121930 TTTATGTAT
1 TTTATTTTT
* *
2121939 TTTCTTTTC
1 TTTATTTTT
*
2121948 TTTATATTT
1 TTTATTTTT
*
2121957 TTTATCTTAT
1 TTTAT-TTTT
*
2121967 TTCATTTTTT
1 TTTA-TTTTT
2121977 TTTATTTTT
1 TTTATTTTT
2121986 TTTAT
1 TTTAT
2121991 CTTCATTACT
Statistics
Matches: 146, Mismatches: 42, Indels: 27
0.68 0.20 0.13
Matches are distributed among these distances:
8 17 0.12
9 82 0.56
10 28 0.19
11 11 0.08
12 5 0.03
13 3 0.02
ACGTcount: A:0.17, C:0.05, G:0.02, T:0.75
Consensus pattern (9 bp):
TTTATTTTT
Found at i:2121813 original size:15 final size:15
Alignment explanation
Indices: 2121789--2121993 Score: 109
Period size: 15 Copynumber: 13.1 Consensus size: 15
2121779 TGTTTATTTT
2121789 TTTA-TTTTTTTATC
1 TTTATTTTTTTTATC
2121803 TTTA-TTTTTTTATC
1 TTTATTTTTTTTATC
* *
2121817 TTTATTTTATTTATTTGG
1 TTTATTTT-TTT-TAT-C
*
2121835 TTTATCTTTATTTTATT
1 TTTAT-TTT-TTTTATC
*
2121852 TTTATTTTCTTTATC
1 TTTATTTTTTTTATC
* *
2121867 TTTATTTTATATAT-
1 TTTATTTTTTTTATC
*
2121881 TTTATTTGTTTTGTATA
1 TTTATTT-TTTT-TATC
**
2121898 TATTATTTTTACTAT-
1 T-TTATTTTTTTTATC
* *
2121913 TATTCTTTTTTATTATT
1 T-TTATTTTTT-TTATC
*
2121930 TTTATGTATTTTCTTTTC
1 TTTAT-T-TTTT-TTATC
*
2121948 TTTATATTTTTTATC
1 TTTATTTTTTTTATC
2121963 -TTATTTCATTTTT-T-
1 TTTATTT--TTTTTATC
2121977 TTTATTTTTTTTATC
1 TTTATTTTTTTTATC
2121992 TT
1 TT
2121994 CATTACTTTT
Statistics
Matches: 151, Mismatches: 22, Indels: 35
0.73 0.11 0.17
Matches are distributed among these distances:
13 5 0.03
14 31 0.21
15 44 0.29
16 27 0.18
17 12 0.08
18 25 0.17
19 7 0.05
ACGTcount: A:0.17, C:0.06, G:0.02, T:0.75
Consensus pattern (15 bp):
TTTATTTTTTTTATC
Found at i:2121980 original size:29 final size:29
Alignment explanation
Indices: 2121943--2122006 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
2121933 ATGTATTTTC
* *
2121943 TTTTCTTTATATTTTTTATCTT-ATTTCAT
1 TTTTTTTTATATTTTTTATCTTCATTAC-T
*
2121972 TTTTTTTTATTTTTTTTATCTTCATTACT
1 TTTTTTTTATATTTTTTATCTTCATTACT
2122001 TTTTTT
1 TTTTTT
2122007 CCCTTTTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
29 27 0.87
30 4 0.13
ACGTcount: A:0.14, C:0.09, G:0.00, T:0.77
Consensus pattern (29 bp):
TTTTTTTTATATTTTTTATCTTCATTACT
Found at i:2122013 original size:29 final size:29
Alignment explanation
Indices: 2121954--2122016 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
2121944 TTTCTTTATA
* **
2121954 TTTTTTATCTTATTTCATTTTTTTTTATT
1 TTTTTTATCTTATTACATTTTTTTCCATT
*
2121983 TTTTTTATCTTCATTAC-TTTTTTTCCCTT
1 TTTTTTATCTT-ATTACATTTTTTTCCATT
2122012 TTTTT
1 TTTTT
2122017 CTAATATTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 25 0.86
30 4 0.14
ACGTcount: A:0.11, C:0.13, G:0.00, T:0.76
Consensus pattern (29 bp):
TTTTTTATCTTATTACATTTTTTTCCATT
Found at i:2124671 original size:31 final size:31
Alignment explanation
Indices: 2124635--2124742 Score: 128
Period size: 31 Copynumber: 3.5 Consensus size: 31
2124625 GAACTTTAGT
* *
2124635 AACTGTCCATAGGTCCCGAAGAACCTAGGTA
1 AACTGTCCATATGTCCCGAAGAACATAGGTA
* **
2124666 AACTGTCCATATGTTCCTTAGAACATAGGTA
1 AACTGTCCATATGTCCCGAAGAACATAGGTA
* *
2124697 TACTGTCCATATGTCTCGAA-AGACATAGGTAA
1 AACTGTCCATATGTCCCGAAGA-ACATAGGT-A
2124729 AACTGTCCATATGT
1 AACTGTCCATATGT
2124743 ACAGTGTATC
Statistics
Matches: 64, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
30 1 0.02
31 49 0.77
32 14 0.22
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (31 bp):
AACTGTCCATATGTCCCGAAGAACATAGGTA
Found at i:2128354 original size:31 final size:29
Alignment explanation
Indices: 2128313--2128420 Score: 90
Period size: 31 Copynumber: 3.5 Consensus size: 29
2128303 TAGGTCTCGA
*
2128313 AGAACCTAGGTAAATTGTACATATGTTTCTT
1 AGAACATAGGTAAATTGT-CATATGTTTC-T
* * *
2128344 AGAACATAGGTATATTGTCCATATGTCTCG
1 AGAACATAGGTAAATTGT-CATATGTTTCT
* * *
2128374 AAAGACATAGGTAAAACTGTCTATATGTTCCGT
1 AGA-ACATAGGT-AAATTGTC-ATATGTTTC-T
2128407 AGAACATAGGTAAA
1 AGAACATAGGTAAA
2128421 CCCTTGACTC
Statistics
Matches: 61, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
30 2 0.03
31 37 0.61
32 20 0.33
33 2 0.03
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.31
Consensus pattern (29 bp):
AGAACATAGGTAAATTGTCATATGTTTCT
Found at i:2128387 original size:62 final size:63
Alignment explanation
Indices: 2128301--2128418 Score: 152
Period size: 63 Copynumber: 1.9 Consensus size: 63
2128291 GACAACTGTT
* * * *
2128301 CATAGGTCTCGAAGAACCTAGGT-AAATTGTAC-ATATGTTTCTTAGAACATAGGTATATTGTC
1 CATAGGTCTCGAAGAACATAGGTAAAACTGT-CTATATGTTCCGTAGAACATAGGTATATTGTC
*
2128363 CATATGTCTCGAA-AGACATAGGTAAAACTGTCTATATGTTCCGTAGAACATAGGTA
1 CATAGGTCTCGAAGA-ACATAGGTAAAACTGTCTATATGTTCCGTAGAACATAGGTA
2128419 AACCCTTGAC
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
61 1 0.02
62 20 0.42
63 27 0.56
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.31
Consensus pattern (63 bp):
CATAGGTCTCGAAGAACATAGGTAAAACTGTCTATATGTTCCGTAGAACATAGGTATATTGTC
Found at i:2128646 original size:2 final size:2
Alignment explanation
Indices: 2128639--2128665 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2128629 TTTCATATTC
2128639 AT 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 AT A
2128666 GTTCACTTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2129344 original size:20 final size:20
Alignment explanation
Indices: 2129319--2129370 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
2129309 AATGAAGGTA
*
2129319 TGTATCGATGCACTCTACAG
1 TGTATCGATGCACTATACAG
2129339 TGTATCGATGCACTATACAG
1 TGTATCGATGCACTATACAG
*
2129359 TGAATCGATGCA
1 TGTATCGATGCA
2129371 TTCCTTAATG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (20 bp):
TGTATCGATGCACTATACAG
Found at i:2136581 original size:3 final size:3
Alignment explanation
Indices: 2136573--2136602 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
2136563 AAAGGTCGGT
2136573 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
2136603 CTTTAAATAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:2142902 original size:7 final size:7
Alignment explanation
Indices: 2142890--2142918 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
2142880 GGAGAGACCG
2142890 AGGAGAA
1 AGGAGAA
2142897 AGGAGAA
1 AGGAGAA
2142904 AGGAGAA
1 AGGAGAA
2142911 AGGAGAA
1 AGGAGAA
2142918 A
1 A
2142919 TAAGAGTGGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.41, T:0.00
Consensus pattern (7 bp):
AGGAGAA
Found at i:2144741 original size:20 final size:19
Alignment explanation
Indices: 2144675--2144741 Score: 61
Period size: 20 Copynumber: 3.6 Consensus size: 19
2144665 AAATATTAAA
2144675 TAAATTTTAGAAGAAAATAT
1 TAAATTTTAGAAG-AAATAT
2144695 TAAATTTTAG-A-AAA-A-
1 TAAATTTTAGAAGAAATAT
***
2144710 TAAATCAAAGAATGAAATAT
1 TAAATTTTAGAA-GAAATAT
2144730 TAAATTTTAGAA
1 TAAATTTTAGAA
2144742 AAAAAAATAT
Statistics
Matches: 36, Mismatches: 6, Indels: 10
0.69 0.12 0.19
Matches are distributed among these distances:
15 7 0.19
16 2 0.06
17 3 0.08
18 3 0.08
19 2 0.06
20 19 0.53
ACGTcount: A:0.57, C:0.01, G:0.09, T:0.33
Consensus pattern (19 bp):
TAAATTTTAGAAGAAATAT
Found at i:2145663 original size:21 final size:20
Alignment explanation
Indices: 2145635--2145674 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
2145625 TCGAGGCCGT
*
2145635 TTCTGATTATTTTGGGGTCA
1 TTCTGATTATTTCGGGGTCA
2145655 TTCTCGATTATTTCGGGGTC
1 TTCT-GATTATTTCGGGGTC
2145675 GTTCCATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.12, C:0.15, G:0.25, T:0.47
Consensus pattern (20 bp):
TTCTGATTATTTCGGGGTCA
Found at i:2145952 original size:5 final size:5
Alignment explanation
Indices: 2145937--2145980 Score: 61
Period size: 5 Copynumber: 8.4 Consensus size: 5
2145927 TGGACCCTAA
*
2145937 AAAATT AAAAT AAAATT AAAAT AAAAT AAAGT AAAAT AAAAT AA
1 AAAA-T AAAAT AAAA-T AAAAT AAAAT AAAAT AAAAT AAAAT AA
2145981 GTATACTATA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
5 26 0.74
6 9 0.26
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (5 bp):
AAAAT
Found at i:2146183 original size:39 final size:39
Alignment explanation
Indices: 2146030--2146241 Score: 150
Period size: 38 Copynumber: 5.4 Consensus size: 39
2146020 CAAATATTAC
* *
2146030 ATATAGTTTTCCAACATGTTTTCTAAA--ATATAC-ATTAT
1 ATATA-TTTTCCAAAATGTTTTCAAAACTATATACTA-TAT
* * * *
2146068 ATATATTTTCCAAAAACGTTTT-AACACTTTTTACTATAT
1 ATATATTTTCC-AAAATGTTTTCAAAACTATATACTATAT
** * *
2146107 ATAT-TTTTGAAAAATATTTTCAAAACTATATAGTATAT
1 ATATATTTTCCAAAATGTTTTCAAAACTATATACTATAT
2146145 ATATATTTT-CAAAATGTTTTCAAAAACTATATTA-TATAT
1 ATATATTTTCCAAAATGTTTTC-AAAACTATA-TACTATAT
** * *
2146184 ATATATATATATTTAAAATGTTTCCAAAAACTATATATTATAT
1 ATATAT-T-T-TCCAAAATGTTTTC-AAAACTATATACTATAT
* *
2146227 ATATGTTTTCAAAAA
1 ATATATTTTCCAAAA
2146242 CTATATATTA
Statistics
Matches: 140, Mismatches: 21, Indels: 24
0.76 0.11 0.13
Matches are distributed among these distances:
37 16 0.11
38 44 0.31
39 35 0.25
40 9 0.06
41 2 0.01
42 4 0.03
43 30 0.21
ACGTcount: A:0.42, C:0.09, G:0.04, T:0.45
Consensus pattern (39 bp):
ATATATTTTCCAAAATGTTTTCAAAACTATATACTATAT
Found at i:2146202 original size:43 final size:42
Alignment explanation
Indices: 2146133--2146230 Score: 146
Period size: 43 Copynumber: 2.3 Consensus size: 42
2146123 TTTTCAAAAC
*
2146133 TATATAGTATATATATATTTTCAAAATGTTTTCAAAAACTATA
1 TATATA-TATATATATATTTTCAAAATGTTTCCAAAAACTATA
2146176 TTATATATATATATATATATTT-AAAATGTTTCCAAAAACTATA
1 -TATATATATATATATAT-TTTCAAAATGTTTCCAAAAACTATA
2146219 TAT-TATATATAT
1 TATATATATATAT
2146231 GTTTTCAAAA
Statistics
Matches: 52, Mismatches: 1, Indels: 5
0.90 0.02 0.09
Matches are distributed among these distances:
41 9 0.17
42 3 0.06
43 31 0.60
44 9 0.17
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.46
Consensus pattern (42 bp):
TATATATATATATATATTTTCAAAATGTTTCCAAAAACTATA
Found at i:2146232 original size:28 final size:28
Alignment explanation
Indices: 2146189--2146296 Score: 184
Period size: 28 Copynumber: 3.9 Consensus size: 28
2146179 TATATATATA
* *
2146189 TATATATT-TA-AAATGTTTCCAAAAAC
1 TATATATTATATATATGTTTTCAAAAAC
2146215 TATATATTATATATATGTTTTCAAAAAC
1 TATATATTATATATATGTTTTCAAAAAC
2146243 TATATATTATATATATGTTTTCAAAAAC
1 TATATATTATATATATGTTTTCAAAAAC
2146271 TATATATTATATATATGTTTTCAAAA
1 TATATATTATATATATGTTTTCAAAA
2146297 TATTTTCAAA
Statistics
Matches: 78, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
26 8 0.10
27 2 0.03
28 68 0.87
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.45
Consensus pattern (28 bp):
TATATATTATATATATGTTTTCAAAAAC
Found at i:2146286 original size:39 final size:39
Alignment explanation
Indices: 2146243--2146325 Score: 105
Period size: 39 Copynumber: 2.1 Consensus size: 39
2146233 TTTCAAAAAC
* * *
2146243 TATATATTAT-ATATATGTTTTCAAAAACTATATATTATA
1 TATATATTATCA-AAATATTTTCAAAAAATATATATTATA
* *
2146282 TATATGTTTTCAAAATATTTTCAAAAAATATATATTATA
1 TATATATTATCAAAATATTTTCAAAAAATATATATTATA
2146321 TATAT
1 TATAT
2146326 TCAAAAAATT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
39 37 0.97
40 1 0.03
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (39 bp):
TATATATTATCAAAATATTTTCAAAAAATATATATTATA
Found at i:2146323 original size:24 final size:26
Alignment explanation
Indices: 2146296--2146351 Score: 89
Period size: 24 Copynumber: 2.2 Consensus size: 26
2146286 TGTTTTCAAA
*
2146296 ATATTTTCAAAAAA-TATATAT-TAT
1 ATATATTCAAAAAATTATATATATAT
2146320 ATATATTCAAAAAATTATATATATAT
1 ATATATTCAAAAAATTATATATATAT
2146346 ATATAT
1 ATATAT
2146352 ATATTAAACA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 13 0.45
25 7 0.24
26 9 0.31
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.45
Consensus pattern (26 bp):
ATATATTCAAAAAATTATATATATAT
Found at i:2146334 original size:37 final size:38
Alignment explanation
Indices: 2146260--2146334 Score: 98
Period size: 39 Copynumber: 2.0 Consensus size: 38
2146250 TATATATATG
* ***
2146260 TTTTCAAAAACTATATATTATATATATGTTTTCAAAATA
1 TTTTCAAAAAATATATATTATATATA-GTTCAAAAAATA
2146299 TTTTCAAAAAATATATATTATATATA-TTCAAAAAAT
1 TTTTCAAAAAATATATATTATATATAGTTCAAAAAAT
2146335 TATATATATA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
37 7 0.22
39 25 0.78
ACGTcount: A:0.48, C:0.07, G:0.01, T:0.44
Consensus pattern (38 bp):
TTTTCAAAAAATATATATTATATATAGTTCAAAAAATA
Found at i:2147082 original size:16 final size:16
Alignment explanation
Indices: 2147063--2147095 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
2147053 TATATGTAAC
*
2147063 ATAAATAATATATAAT
1 ATAAATAATAAATAAT
2147079 ATAAATAATAAATAAT
1 ATAAATAATAAATAAT
2147095 A
1 A
2147096 AATTGACAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
ATAAATAATAAATAAT
Found at i:2148855 original size:2 final size:2
Alignment explanation
Indices: 2148848--2148903 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
2148838 CGGCATAGTG
2148848 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2148890 TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA
2148904 CATACATACG
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2151705 original size:19 final size:21
Alignment explanation
Indices: 2151666--2151705 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
2151656 CCCTATATAT
2151666 AAACACACATGATCACTATTC
1 AAACACACATGATCACTATTC
*
2151687 AAACACATATG-TCAC-ATTC
1 AAACACACATGATCACTATTC
2151706 TAGGAGTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
20 4 0.22
21 10 0.56
ACGTcount: A:0.42, C:0.28, G:0.05, T:0.25
Consensus pattern (21 bp):
AAACACACATGATCACTATTC
Found at i:2153074 original size:23 final size:23
Alignment explanation
Indices: 2153048--2153108 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 23
2153038 ATTCAATTGA
** *
2153048 TGATGTGGTATATGTCACTTTAG
1 TGATGTGACATATATCACTTTAG
* *
2153071 TGATATCACATATATCACTTTAG
1 TGATGTGACATATATCACTTTAG
2153094 TGATGTGACATATAT
1 TGATGTGACATATAT
2153109 TACGTCAACA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.30, C:0.11, G:0.18, T:0.41
Consensus pattern (23 bp):
TGATGTGACATATATCACTTTAG
Found at i:2163495 original size:2 final size:2
Alignment explanation
Indices: 2163488--2163552 Score: 77
Period size: 2 Copynumber: 35.0 Consensus size: 2
2163478 TAAATAAATC
*
2163488 TA TA TA TA T- TA TA -A TT TA TA -A TA T- TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
2163526 TA TA TA TA TA TA TT TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2163553 ATTTATAATT
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
1 5 0.09
2 49 0.91
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:2164824 original size:121 final size:121
Alignment explanation
Indices: 2164443--2165023 Score: 866
Period size: 121 Copynumber: 4.8 Consensus size: 121
2164433 TTATCCGTTA
* * *
2164443 GGCACGATATCCTTCGTCATGAAGTTGAAATCGTGAATGGCTCATTCGTTGTGAAATTGAGCTTT
1 GGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCTCATTCGTTGTGAAGTTGAGCTTT
*
2164508 GAATTGGATATCCTTCATCGT-AACGTTGAAATCCAAGGGTTGCATTGCTGCTTATG
66 GAATTGGATATCCTTCATCGTGAA-GTTGAAATCCAAGGGTTGCATTGCTGCTTGTG
* * *
2164564 GGCACGATATCCTTCGTCGTGAAGTTAAAATCGTGGATGGCTCCTACGTTGTGAAGTTGAGCTTT
1 GGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCTCATTCGTTGTGAAGTTGAGCTTT
* * * * * *
2164629 AAATTGAATATCCTTC-T--T-CATTTTAAATCCAAGGGTTGCATTACTGCTTGTG
66 GAATTGGATATCCTTCATCGTGAAGTTGAAATCCAAGGGTTGCATTGCTGCTTGTG
2164681 GGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCTCATTCGTTGTGAAGTTGAGCTTT
1 GGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCTCATTCGTTGTGAAGTTGAGCTTT
** * *
2164746 GAATTAAATATCCTTCATCGTGAAGTTTAAATCCAATGGTTGCATTGCTGCTTGTG
66 GAATTGGATATCCTTCATCGTGAAGTTGAAATCCAAGGGTTGCATTGCTGCTTGTG
* * *
2164802 GGCACGATATCCTTTGTTGTGAAGTTGAAATCGTGGATGGCTCATTCGTTGTGAAGTTGAACTTT
1 GGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCTCATTCGTTGTGAAGTTGAGCTTT
* * *
2164867 GAATTGGATATCATTCATCGTGAAGTTGAAATCTAAGGGTTGCATTGCTTCTTGTG
66 GAATTGGATATCCTTCATCGTGAAGTTGAAATCCAAGGGTTGCATTGCTGCTTGTG
* * *
2164923 GGCACGATATCCTTCATCGTGAAGTTGAAATCTTGGATGGCTCATTCGTTGTGAAGTTGAGCCTT
1 GGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCTCATTCGTTGTGAAGTTGAGCTTT
**
2164988 GAATTGGATATCCTTCATAATGAAGTTGAAATCCAA
66 GAATTGGATATCCTTCATCGTGAAGTTGAAATCCAA
2165024 TCTAGAGATA
Statistics
Matches: 414, Mismatches: 42, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
117 104 0.25
118 3 0.01
120 2 0.00
121 305 0.74
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.35
Consensus pattern (121 bp):
GGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCTCATTCGTTGTGAAGTTGAGCTTT
GAATTGGATATCCTTCATCGTGAAGTTGAAATCCAAGGGTTGCATTGCTGCTTGTG
Found at i:2164861 original size:238 final size:241
Alignment explanation
Indices: 2164443--2165024 Score: 866
Period size: 238 Copynumber: 2.4 Consensus size: 241
2164433 TTATCCGTTA
* * *
2164443 GGCACGATATCCTTCGTCATGAAGTTGAAATCGTGAATGGCTCATTCGTTGTGAAATTGAGCTTT
1 GGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCTCATTCGTTGTGAAGTTGAGCTTT
*
2164508 GAATTGGATATCCTTCATCGT-AACGTTGAAATCCAAGGGTTGCATTGCTGCTTATGGGCACGAT
66 GAATTGGATATCCTTCATCGTGAA-GTTGAAATCCAATGGTTGCATTGCTGCTTATGGGCACGAT
* *
2164572 ATCCTTCGTCGTGAAGTTAAAATCGTGGATGGCTCCTACGTTGTGAAGTTGAGCTTTAAATTGAA
130 ATCCTTCGTCGTGAAGTTAAAATCGTGGATGGCTCATACGTTGTGAAGTTGAACTTTAAATTGAA
* * * *
2164637 TATCCTTC-T-T-CATTTTAAATCCAAGGGTTGCATTACTGCTTGTG
195 TATCATTCATCTGAAGTTGAAATCCAAGGGTTGCATTACTGCTTGTG
2164681 GGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCTCATTCGTTGTGAAGTTGAGCTTT
1 GGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCTCATTCGTTGTGAAGTTGAGCTTT
** * *
2164746 GAATTAAATATCCTTCATCGTGAAGTTTAAATCCAATGGTTGCATTGCTGCTTGTGGGCACGATA
66 GAATTGGATATCCTTCATCGTGAAGTTGAAATCCAATGGTTGCATTGCTGCTTATGGGCACGATA
* * * * * *
2164811 TCCTTTGTTGTGAAGTTGAAATCGTGGATGGCTCATTCGTTGTGAAGTTGAACTTTGAATTGGAT
131 TCCTTCGTCGTGAAGTTAAAATCGTGGATGGCTCATACGTTGTGAAGTTGAACTTTAAATTGAAT
* * *
2164876 ATCATTCATCGTGAAGTTGAAATCTAAGGGTTGCATTGCTTCTTGTG
196 ATCATTCATC-TGAAGTTGAAATCCAAGGGTTGCATTACTGCTTGTG
* * *
2164923 GGCACGATATCCTTCATCGTGAAGTTGAAATCTTGGATGGCTCATTCGTTGTGAAGTTGAGCCTT
1 GGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCTCATTCGTTGTGAAGTTGAGCTTT
**
2164988 GAATTGGATATCCTTCATAATGAAGTTGAAATCCAAT
66 GAATTGGATATCCTTCATCGTGAAGTTGAAATCCAAT
2165025 CTAGAGATAG
Statistics
Matches: 308, Mismatches: 31, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
238 182 0.59
239 3 0.01
241 1 0.00
242 122 0.40
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.35
Consensus pattern (241 bp):
GGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCTCATTCGTTGTGAAGTTGAGCTTT
GAATTGGATATCCTTCATCGTGAAGTTGAAATCCAATGGTTGCATTGCTGCTTATGGGCACGATA
TCCTTCGTCGTGAAGTTAAAATCGTGGATGGCTCATACGTTGTGAAGTTGAACTTTAAATTGAAT
ATCATTCATCTGAAGTTGAAATCCAAGGGTTGCATTACTGCTTGTG
Found at i:2165351 original size:64 final size:64
Alignment explanation
Indices: 2165054--2165348 Score: 430
Period size: 64 Copynumber: 4.6 Consensus size: 64
2165044 GCATTGTTTC
* ** *
2165054 GAGTCCAATATCATTCATTATGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTT
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTT
* * * * *
2165118 GAGTCCAATATCTTTTGCTGTGAAGTTGAAATTGACTCTGAATTAAACGGGGAAGTTGTTTGTT
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTT
* * *
2165182 GAGTCCAATATCCTTCGCTCTGAAGTTGAAATTAACTCTGAATGAAACAT-GAAAGTTTTTTGTT
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAAC-TGGAAAGTTGTTTGTT
* *
2165246 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTAAATGAAACTGAAAAGTTGTTTGTT
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTT
* *
2165310 GAGTCCAATATCCTTCGTTGTGAAGTTAAAATTGACTCT
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCT
2165349 AAAAGCTGCA
Statistics
Matches: 206, Mismatches: 23, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
63 1 0.00
64 205 1.00
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.36
Consensus pattern (64 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTT
Found at i:2170560 original size:19 final size:18
Alignment explanation
Indices: 2170516--2170560 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
2170506 ATAGGTATTT
* *
2170516 AAAAAAAATAATGAGAAC
1 AAAAAAAATAAAGAAAAC
2170534 AAACAAAAATAAAGAAAAGC
1 AAA-AAAAATAAAGAAAA-C
2170554 AAAAAAA
1 AAAAAAA
2170561 TAATAATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 3 0.13
19 16 0.70
20 4 0.17
ACGTcount: A:0.78, C:0.07, G:0.09, T:0.07
Consensus pattern (18 bp):
AAAAAAAATAAAGAAAAC
Found at i:2170690 original size:2 final size:2
Alignment explanation
Indices: 2170683--2170731 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
2170673 ATGTGAGGTG
2170683 AT AT AT AT 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 AT AT AT AT
2170725 AT AT AT A
1 AT AT AT A
2170732 GTGTTTAATA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2170860 original size:4 final size:4
Alignment explanation
Indices: 2170853--2170926 Score: 52
Period size: 4 Copynumber: 18.8 Consensus size: 4
2170843 ATACACACAC
2170853 AAAT AAAT -AA- AAAT AAA- AAAT ATAAGT AAAT -AA- AAAT AAAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT A-AA-T AAAT AAAT AAAT -AAAT AAAT
*
2170899 AATAT ATATT AAA- AAAT AAAT AAAT AAA
1 AA-AT A-AAT AAAT AAAT AAAT AAAT AAA
2170927 ATAATAATAA
Statistics
Matches: 57, Mismatches: 2, Indels: 22
0.70 0.02 0.27
Matches are distributed among these distances:
3 14 0.25
4 27 0.47
5 13 0.23
6 3 0.05
ACGTcount: A:0.74, C:0.00, G:0.01, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:2170871 original size:63 final size:58
Alignment explanation
Indices: 2170756--2171000 Score: 145
Period size: 63 Copynumber: 4.2 Consensus size: 58
2170746 AAGTAAAAAG
* * ** *
2170756 TAATAATAAA-AAAATACAATACATATATAT-AAAATATTAGGTAAAAACAAAAATAATAA
1 TAATAAAAAATAAAATA-AATA-ATATATATCAAAA-AATAAATAAAAATAAAAATAATAA
*
2170815 TAATAAAAAAGGTAAAATATAT-ATATATATACACACACAAATAAATAAAAATAAAAA-ATATAA
1 TAATAAAAAA--TAAAATAAATAATATATAT-CA-A-A-AAATAAATAAAAATAAAAATA-ATAA
*
2170878 GTAA-ATAAAAATAAAATAAATAATATATATTAAAAAATAAAT--AAAT-AAAATAATAA
1 -TAATA-AAAAATAAAATAAATAATATATATCAAAAAATAAATAAAAATAAAAATAATAA
* * * * * * *
2170934 TAATAAACCAA-AAAATAAA-AATATTAAAACCAAAGAATAAA-GAAGATAAAAATAAAAA
1 TAATAAA-AAATAAAATAAATAATA-T-ATATCAAAAAATAAATAAAAATAAAAATAATAA
2170992 T-ATAAAAAA
1 TAATAAAAAA
2171001 ATATGTATAA
Statistics
Matches: 150, Mismatches: 16, Indels: 43
0.72 0.08 0.21
Matches are distributed among these distances:
54 4 0.03
55 14 0.09
56 24 0.16
57 13 0.09
58 10 0.07
59 25 0.17
60 1 0.01
61 4 0.03
62 18 0.12
63 28 0.19
64 9 0.06
ACGTcount: A:0.69, C:0.04, G:0.03, T:0.23
Consensus pattern (58 bp):
TAATAAAAAATAAAATAAATAATATATATCAAAAAATAAATAAAAATAAAAATAATAA
Found at i:2170900 original size:23 final size:22
Alignment explanation
Indices: 2170854--2170936 Score: 80
Period size: 23 Copynumber: 3.7 Consensus size: 22
2170844 TACACACACA
2170854 AATAAATAAAAATAAAA-AATAT
1 AATAAATAAAAATAAAATAA-AT
2170876 AAGTAAATAAAAATAAAATAAAT
1 AA-TAAATAAAAATAAAATAAAT
* **
2170899 AATATATATTAA-AAAATAAAT
1 AATAAATAAAAATAAAATAAAT
*
2170920 AAATAAAATAATAATAA
1 -AAT-AAATAAAAATAA
2170937 TAAACCAAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
21 9 0.18
22 12 0.24
23 26 0.51
24 4 0.08
ACGTcount: A:0.73, C:0.00, G:0.01, T:0.25
Consensus pattern (22 bp):
AATAAATAAAAATAAAATAAAT
Found at i:2170916 original size:14 final size:13
Alignment explanation
Indices: 2170857--2170922 Score: 53
Period size: 13 Copynumber: 5.0 Consensus size: 13
2170847 ACACACAAAT
*
2170857 AAATAAAAATAAA
1 AAATATAAATAAA
*
2170870 AAATATAAGTAAA
1 AAATATAAATAAA
*
2170883 TAAAAATAAAATAAA
1 -AAATAT-AAATAAA
* * *
2170898 TAATATATATTAA
1 AAATATAAATAAA
2170911 AAA-ATAAATAAA
1 AAATATAAATAAA
2170923 TAAAATAATA
Statistics
Matches: 40, Mismatches: 11, Indels: 5
0.71 0.20 0.09
Matches are distributed among these distances:
12 7 0.17
13 18 0.45
14 9 0.22
15 6 0.15
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (13 bp):
AAATATAAATAAA
Found at i:2170920 original size:30 final size:29
Alignment explanation
Indices: 2170806--2170953 Score: 101
Period size: 29 Copynumber: 5.0 Consensus size: 29
2170796 GTAAAAACAA
**
2170806 AAATAATA-ATAAT-AAAAAAGGTAAAAT
1 AAATAATATATAATAAAAAAAAATAAAAT
* * *
2170833 ATATATATATATACACACACAAATAAATAAAAAT
1 AAATA-ATATATA-ATA-A-AAAAAAAT-AAAAT
*
2170867 AAA-AA-ATATAAGTAAATAAAAATAAAAT
1 AAATAATATATAA-TAAAAAAAAATAAAAT
*
2170895 AAATAATATATATTAAAAAATAAAT-AAAT
1 AAATAATATATAATAAAAAA-AAATAAAAT
2170924 AAAATAATA-ATAATAAACCAAAAAATAAAA
1 -AAATAATATATAATAAA--AAAAAATAAAA
2170954 ATATTAAAAC
Statistics
Matches: 94, Mismatches: 12, Indels: 26
0.71 0.09 0.20
Matches are distributed among these distances:
27 4 0.04
28 11 0.12
29 28 0.30
30 24 0.26
31 12 0.13
32 2 0.02
33 6 0.06
34 7 0.07
ACGTcount: A:0.70, C:0.04, G:0.02, T:0.24
Consensus pattern (29 bp):
AAATAATATATAATAAAAAAAAATAAAAT
Found at i:2170947 original size:34 final size:34
Alignment explanation
Indices: 2170886--2170952 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
2170876 AAGTAAATAA
* **
2170886 AAATAAAATAAATAATATATATTAAAAAATAAAT
1 AAATAAAATAAATAATATAAACCAAAAAATAAAT
2170920 AAATAAAAT-AATAATAATAAACCAAAAAATAAA
1 AAATAAAATAAATAAT-ATAAACCAAAAAATAAA
2170953 AATATTAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 6 0.21
34 23 0.79
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (34 bp):
AAATAAAATAAATAATATAAACCAAAAAATAAAT
Found at i:2170950 original size:21 final size:22
Alignment explanation
Indices: 2170924--2170974 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
2170914 ATAAATAAAT
*
2170924 AAAATAATAATAAT-AAACCAA
1 AAAATAAAAATAATAAAACCAA
*
2170945 AAAATAAAAATATTAAAACCAA
1 AAAATAAAAATAATAAAACCAA
*
2170967 AGAATAAA
1 AAAATAAA
2170975 GAAGATAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 12 0.46
22 14 0.54
ACGTcount: A:0.73, C:0.08, G:0.02, T:0.18
Consensus pattern (22 bp):
AAAATAAAAATAATAAAACCAA
Found at i:2170983 original size:22 final size:22
Alignment explanation
Indices: 2170938--2170999 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
2170928 TAATAATAAT
*
2170938 AAACCAAAAAATAAAAATATTA
1 AAACCAAAAAATAAAAAGATTA
*
2170960 AAACCAAAGAATAAAGAAGA-TA
1 AAACCAAAAAATAAA-AAGATTA
**
2170982 AAAATAAAAATATAAAAA
1 AAACCAAAAA-ATAAAAA
2171000 AATATGTATA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
22 25 0.76
23 8 0.24
ACGTcount: A:0.74, C:0.06, G:0.05, T:0.15
Consensus pattern (22 bp):
AAACCAAAAAATAAAAAGATTA
Found at i:2170998 original size:8 final size:7
Alignment explanation
Indices: 2170857--2171000 Score: 55
Period size: 7 Copynumber: 19.4 Consensus size: 7
2170847 ACACACAAAT
2170857 AAAT-AA
1 AAATAAA
2170863 AAATAAA
1 AAATAAA
2170870 AAATATAA
1 AAATA-AA
2170878 GTAAAT-AA
1 --AAATAAA
2170886 AAAT--A
1 AAATAAA
2170891 AAATAAA
1 AAATAAA
* *
2170898 TAATATA
1 AAATAAA
* *
2170905 TATTAAA
1 AAATAAA
2170912 AAATAAA
1 AAATAAA
2170919 TAAATAAA
1 -AAATAAA
2170927 ATAATAATAA
1 A-AAT-A-AA
*
2170937 TAAACCAAA
1 -AAA-TAAA
2170946 AAATAAA
1 AAATAAA
*
2170953 AATATTAA
1 AA-ATAAA
**
2170961 AACCAAA
1 AAATAAA
*
2170968 GAATAAA
1 AAATAAA
2170975 GAAGAT-AA
1 -AA-ATAAA
2170983 AAATAAA
1 AAATAAA
2170990 AATATAAA
1 AA-ATAAA
2170998 AAA
1 AAA
2171001 ATATGTATAA
Statistics
Matches: 105, Mismatches: 16, Indels: 33
0.68 0.10 0.21
Matches are distributed among these distances:
5 5 0.05
6 10 0.10
7 42 0.40
8 33 0.31
9 5 0.05
10 9 0.09
11 1 0.01
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.21
Consensus pattern (7 bp):
AAATAAA
Found at i:2170999 original size:52 final size:50
Alignment explanation
Indices: 2170863--2171000 Score: 120
Period size: 52 Copynumber: 2.6 Consensus size: 50
2170853 AAATAAATAA
*
2170863 AAATAAA-AAATATAAGTAAATAAAAATAAAATAAATAATATATATTAAAAAAT
1 AAATAAAGAAA-ATAA--AAATAAAAATAAAA-AAATAATAAATATTAAAAAAT
* * **
2170916 AAATAAATAAAATAATAATAATAAACCAAAAAATAA-AAATATTAAAACCAA-
1 AAATAAAGAAAATAAAAATAA-AAATAAAAAAATAATAAATATTAAAA--AAT
*
2170967 AGAATAAAGAAGATAAAAATAAAAATATAAAAAA
1 A-AATAAAGAAAATAAAAATAAAAATA-AAAAAA
2171001 ATATGTATAA
Statistics
Matches: 70, Mismatches: 9, Indels: 13
0.76 0.10 0.14
Matches are distributed among these distances:
50 10 0.14
51 15 0.21
52 31 0.44
53 11 0.16
54 3 0.04
ACGTcount: A:0.73, C:0.03, G:0.03, T:0.21
Consensus pattern (50 bp):
AAATAAAGAAAATAAAAATAAAAATAAAAAAATAATAAATATTAAAAAAT
Found at i:2174861 original size:16 final size:18
Alignment explanation
Indices: 2174817--2174863 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
2174807 ATTGTTTAAA
*
2174817 TTATATTATTT-ATTAATT
1 TTATA-TATTTAAATAATT
2174835 TTATATATTTAAATAATT
1 TTATATATTTAAATAATT
2174853 TT-T-TATTTAAA
1 TTATATATTTAAA
2174864 GTATGTATCT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
16 8 0.30
17 6 0.22
18 13 0.48
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TTATATATTTAAATAATT
Found at i:2174993 original size:26 final size:26
Alignment explanation
Indices: 2174943--2175098 Score: 77
Period size: 26 Copynumber: 5.7 Consensus size: 26
2174933 ACTTGACACG
*
2174943 TGTATAATGTATGTAT-AACTTATTAA
1 TGTATAATGTATGTATGAA-TAATTAA
*
2174969 TGTATAATGTATGTATGCATAATTAATAA
1 TGTATAATGTATGTATGAATAA-T--TAA
*
2174998 TATATAATGTATATTGTATGAATAATTAA
1 TGTATAATG--TA-TGTATGAATAATTAA
* * *
2175027 TTAACGCATAATGTATGAATTG-ATAAATAA
1 -T---GTATAATGTATGTA-TGAATAATTAA
* * *
2175057 -GTATAATGTGTGTAT-ACTTTATTAA
1 TGTATAATGTATGTATGA-ATAATTAA
*
2175082 TGTACAATGTATGTATG
1 TGTATAATGTATGTATG
2175099 TATGTATAAT
Statistics
Matches: 98, Mismatches: 16, Indels: 31
0.68 0.11 0.21
Matches are distributed among these distances:
24 1 0.01
25 16 0.16
26 31 0.32
27 2 0.02
29 14 0.14
30 11 0.11
31 7 0.07
32 10 0.10
33 6 0.06
ACGTcount: A:0.40, C:0.04, G:0.14, T:0.42
Consensus pattern (26 bp):
TGTATAATGTATGTATGAATAATTAA
Found at i:2175212 original size:2 final size:2
Alignment explanation
Indices: 2175193--2175425 Score: 70
Period size: 2 Copynumber: 117.5 Consensus size: 2
2175183 ATTTTTAGCG
* *
2175193 TA TA CTA TA TA GTT TA TA TA TA TA CTA -A TA AA CTA TA TA -A TA
1 TA TA -TA TA TA -TA TA TA TA TA TA -TA TA TA TA -TA TA TA TA TA
* *
2175235 TA TA GTT TA TA TA TA CTA -A TGA -A CTA TA TA GTT TA T- TA -A TA
1 TA TA -TA TA TA TA TA -TA TA T-A TA -TA TA TA -TA TA TA TA TA TA
* * *
2175276 TA -A T- TA TA TA AA CTA TA TA AA CTA TA TA TA TA TA TA CA CTA
1 TA TA TA TA TA TA TA -TA TA TA TA -TA TA TA TA TA TA TA TA -TA
* * * * *
2175317 CA TA GTT TA TA TA TA -A TA TA TA -A AA T- TA TA AA TA TA AA CTA
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA
* *
2175358 TA TA GTT TA TA TA TA T- TA TA T- TA -A TA TA TA CT- TT 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
2175398 TA TA TA TA TA TA TA T- TA -A TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2175426 TGATTTAATT
Statistics
Matches: 171, Mismatches: 26, Indels: 68
0.65 0.10 0.26
Matches are distributed among these distances:
1 18 0.11
2 134 0.78
3 19 0.11
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (2 bp):
TA
Found at i:2175262 original size:26 final size:25
Alignment explanation
Indices: 2175226--2175425 Score: 126
Period size: 26 Copynumber: 8.2 Consensus size: 25
2175216 ACTAATAAAC
2175226 TATATAA-TATATAGTTTATATATA
1 TATATAACTATATAGTTTATATATA
2175250 CTA-ATGAACTATATAGTTTATTAATATAA
1 -TATAT-AACTATATAGTTTA-T-ATAT-A
***
2175279 TTATATAAACTATATAAACTATATATA
1 -TATAT-AACTATATAGTTTATATATA
*
2175306 TATATACACTACATAGTTTATATATA
1 TATATA-ACTATATAGTTTATATATA
*
2175332 -ATAT-A-TA-A-A-ATTATA-A-A
1 TATATAACTATATAGTTTATATATA
2175349 TATA-AACTATATAGTTTATATATA
1 TATATAACTATATAGTTTATATATA
*
2175373 TTATATTAA-TATATACTTT-TATATA
1 -TATA-TAACTATATAGTTTATATATA
*
2175398 TATATATA-TATATA-TTAATATAT-
1 TATATA-ACTATATAGTTTATATATA
2175421 TATAT
1 TATAT
2175426 TGATTTAATT
Statistics
Matches: 142, Mismatches: 13, Indels: 42
0.72 0.07 0.21
Matches are distributed among these distances:
17 1 0.01
18 5 0.04
19 7 0.05
20 2 0.01
21 2 0.01
22 7 0.05
23 11 0.08
24 19 0.13
25 19 0.13
26 40 0.28
27 4 0.03
28 8 0.06
29 4 0.03
30 13 0.09
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (25 bp):
TATATAACTATATAGTTTATATATA
Found at i:2175303 original size:11 final size:9
Alignment explanation
Indices: 2175280--2175361 Score: 50
Period size: 9 Copynumber: 9.7 Consensus size: 9
2175270 TTAATATAAT
2175280 TATATAAAC
1 TATATAAAC
2175289 TATATAAAC
1 TATATAAAC
*
2175298 TATATATA-
1 TATATAAAC
*
2175306 TATATACAC
1 TATATAAAC
* ***
2175315 TACATAGTT
1 TATATAAAC
2175324 TATATATAA-
1 TATATA-AAC
*
2175333 TATATAAAA
1 TATATAAAC
2175342 T-TAT-AA-
1 TATATAAAC
2175348 -ATATAAAC
1 TATATAAAC
2175356 TATATA
1 TATATA
2175362 GTTTATATAT
Statistics
Matches: 57, Mismatches: 9, Indels: 14
0.71 0.11 0.17
Matches are distributed among these distances:
6 3 0.05
7 4 0.07
8 12 0.21
9 38 0.67
ACGTcount: A:0.52, C:0.07, G:0.01, T:0.39
Consensus pattern (9 bp):
TATATAAAC
Found at i:2175364 original size:41 final size:43
Alignment explanation
Indices: 2175279--2175387 Score: 125
Period size: 41 Copynumber: 2.6 Consensus size: 43
2175269 ATTAATATAA
* *
2175279 TTATATA-AACTATATAAACTATATATATATATACACTACATAGT
1 TTATATATAA-TATATAAAC-ATATATAAATATAAACTACATAGT
*
2175323 TTATATATAATATATAAA-AT-TATAAATATAAACTATATAGT
1 TTATATATAATATATAAACATATATAAATATAAACTACATAGT
* * *
2175364 TTATATATATTATATTAATATATA
1 TTATATATAATATATAAACATATA
2175388 CTTTTATATA
Statistics
Matches: 57, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
41 34 0.60
42 4 0.07
43 2 0.04
44 15 0.26
45 2 0.04
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.43
Consensus pattern (43 bp):
TTATATATAATATATAAACATATATAAATATAAACTACATAGT
Found at i:2175387 original size:49 final size:47
Alignment explanation
Indices: 2175323--2175426 Score: 120
Period size: 49 Copynumber: 2.1 Consensus size: 47
2175313 ACTACATAGT
2175323 TTATATATAATATATAAAATTATAAATATAAACTATATAGT-TTATATATA
1 TTATAT-TAATATATAAAATTATAAATATAAA-TATATA-TATTA-ATATA
*** * *
2175373 TTATATTAATATATACTTTTATATATATATATATATATATTAATATA
1 TTATATTAATATATAAAATTATAAATATAAATATATATATTAATATA
2175420 TTATATT
1 TTATATT
2175427 GATTTAATTT
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
47 13 0.27
48 9 0.19
49 20 0.42
50 6 0.12
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.50
Consensus pattern (47 bp):
TTATATTAATATATAAAATTATAAATATAAATATATATATTAATATA
Found at i:2175417 original size:34 final size:33
Alignment explanation
Indices: 2175298--2175420 Score: 108
Period size: 34 Copynumber: 3.7 Consensus size: 33
2175288 CTATATAAAC
* * * *
2175298 TATATATATATATA-CACTACATAGTTTATATA
1 TATATATATATATATTAATATATACTTTATATA
* * * * *
2175330 TA-ATATATAAAATTATAAATATAAACTATATAGTT
1 TATATATAT-ATA-TATTAATATATACTTTATA-TA
2175365 TATATATAT-TATATTAATATATACTTTTATATA
1 TATATATATATATATTAATATATAC-TTTATATA
2175398 TATATATATATATATTAATATAT
1 TATATATATATATATTAATATAT
2175421 TATATTGATT
Statistics
Matches: 71, Mismatches: 13, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
31 6 0.08
32 4 0.06
33 23 0.32
34 29 0.41
35 3 0.04
36 6 0.08
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (33 bp):
TATATATATATATATTAATATATACTTTATATA
Found at i:2178198 original size:19 final size:19
Alignment explanation
Indices: 2178174--2178234 Score: 74
Period size: 19 Copynumber: 3.4 Consensus size: 19
2178164 AAAATCGAAA
2178174 TCGGTTTTTTCGGTTCGGT
1 TCGGTTTTTTCGGTTCGGT
**
2178193 TCGGTTTTTT--AAT-GGT
1 TCGGTTTTTTCGGTTCGGT
*
2178209 TCGGGTTTTTCGGTTCGGT
1 TCGGTTTTTTCGGTTCGGT
2178228 TCGGTTT
1 TCGGTTT
2178235 ATCGGTTTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
16 12 0.36
17 1 0.03
18 1 0.03
19 19 0.58
ACGTcount: A:0.03, C:0.13, G:0.31, T:0.52
Consensus pattern (19 bp):
TCGGTTTTTTCGGTTCGGT
Found at i:2178630 original size:2 final size:2
Alignment explanation
Indices: 2178625--2178655 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2178615 TGAATGTGTG
2178625 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2178656 GGTGATTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2179613 original size:17 final size:17
Alignment explanation
Indices: 2179593--2179626 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
2179583 TAAAATTACC
2179593 CAACCATTAGAAAGATA
1 CAACCATTAGAAAGATA
*
2179610 CAACCTTTAGAAAGATA
1 CAACCATTAGAAAGATA
2179627 AAGAATATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.18, G:0.12, T:0.21
Consensus pattern (17 bp):
CAACCATTAGAAAGATA
Found at i:2181476 original size:20 final size:20
Alignment explanation
Indices: 2181422--2181467 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
2181412 ACAAAACATG
2181422 GGTGGCCAGCAAATATTAGT
1 GGTGGCCAGCAAATATTAGT
2181442 GGTGGCCAGCAAATATTAGT
1 GGTGGCCAGCAAATATTAGT
2181462 GGTGGC
1 GGTGGC
2181468 AGTATAATAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.26, C:0.15, G:0.35, T:0.24
Consensus pattern (20 bp):
GGTGGCCAGCAAATATTAGT
Found at i:2182151 original size:3 final size:3
Alignment explanation
Indices: 2182145--2182176 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
2182135 ACATTATTAT
2182145 TAA TAA TAA -AA TAA TAA T-A TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
2182177 GATAGTATCC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
2 4 0.15
3 23 0.85
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:2182161 original size:11 final size:11
Alignment explanation
Indices: 2182145--2182175 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
2182135 ACATTATTAT
2182145 TAATAATAAAA
1 TAATAATAAAA
*
2182156 TAATAATATAA
1 TAATAATAAAA
2182167 TAATAATAA
1 TAATAATAA
2182176 TGATAGTATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
TAATAATAAAA
Found at i:2182503 original size:52 final size:52
Alignment explanation
Indices: 2182434--2183350 Score: 1557
Period size: 52 Copynumber: 17.6 Consensus size: 52
2182424 TCGCTCTCTA
* * * *
2182434 TTTCTTCAGGGAGTAGAACTCGAACGATAATCTTCCTACGAGACTGCCCAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAAT
* *
2182486 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAAT
* * * **
2182538 TTTATTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTATCCAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAAT
*
2182590 TTTCTTCAGGGACTAGAACTCGAAAAATAATCTTCCTACGGGTCTGCCCAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAAT
* *
2182642 TTTCTTCAAGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGTCCAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAAT
*
2182694 TTTCTTCAAGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAAT
* *
2182746 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAAT
*
2182798 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGTCTGCCCAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAAT
*
2182850 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGTCCAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAAT
2182902 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAAT
*
2182954 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGTCCAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAAT
* *
2183006 TTTCTTCAAGGACTAGAACTCGAACAATAATCTTCCTACGAGAT-TGCCCAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACG-GGTCTGCCCAAT
2183058 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAAT
*
2183110 TTTCTTCAGGGACTAGAACTCGAAAAATAATCTTCCTACGGGTCTGCCCAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAAT
*
2183162 TTTCTTCAAGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAAT
* * * **
2183214 TTTCTTCAGGGACTAGAACCCAAACAATAATCTTCCTACGAGAATGCCCAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAAT
2183266 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAAT
2183318 TTTCTTCAGGGACTAGAACTCGAACAATAATCT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCT
2183351 CCAACGATCG
Statistics
Matches: 821, Mismatches: 42, Indels: 4
0.95 0.05 0.00
Matches are distributed among these distances:
51 2 0.00
52 817 1.00
53 2 0.00
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.29
Consensus pattern (52 bp):
TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAAT
Found at i:2183405 original size:55 final size:55
Alignment explanation
Indices: 2183346--2183570 Score: 373
Period size: 55 Copynumber: 4.1 Consensus size: 55
2183336 CTCGAACAAT
* *
2183346 AATCTCCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
1 AATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
*
2183401 AATCTTCAACAATCGCGTCTGCCCCCTATTTATTCAGAGAGTATAAGACTCGAAC
1 AATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
* * *
2183456 AATCTTCAACGATCACGTCTGCCCCCTATTTCTTCAGAGAGTATAAGA-TC-CAC
1 AATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
*
2183509 AATCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
1 AATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
2183564 AATCTTC
1 AATCTTC
2183571 TTTTGCTTCA
Statistics
Matches: 157, Mismatches: 11, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
53 47 0.30
54 4 0.03
55 106 0.68
ACGTcount: A:0.28, C:0.29, G:0.14, T:0.28
Consensus pattern (55 bp):
AATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
Found at i:2183554 original size:108 final size:110
Alignment explanation
Indices: 2183346--2183570 Score: 391
Period size: 108 Copynumber: 2.1 Consensus size: 110
2183336 CTCGAACAAT
* *
2183346 AATCTCCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAAC
1 AATCTTCAACGATCACGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAAC
2183411 AATCGCGTCTGCCCCCTATTTATTCAGAGAGTATAAGACTCGAAC
66 AATCGCGTCTGCCCCCTATTTATTCAGAGAGTATAAGACTCGAAC
* *
2183456 AATCTTCAACGATCACGTCTGCCCCCTATTTCTTCAGAGAGTATAAGA-TC-CACAATCTTCATC
1 AATCTTCAACGATCACGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAAC
*
2183519 AATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
66 AATCGCGTCTGCCCCCTATTTATTCAGAGAGTATAAGACTCGAAC
2183564 AATCTTC
1 AATCTTC
2183571 TTTTGCTTCA
Statistics
Matches: 110, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
108 62 0.56
109 2 0.02
110 46 0.42
ACGTcount: A:0.28, C:0.29, G:0.14, T:0.28
Consensus pattern (110 bp):
AATCTTCAACGATCACGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAAC
AATCGCGTCTGCCCCCTATTTATTCAGAGAGTATAAGACTCGAAC
Found at i:2184759 original size:14 final size:13
Alignment explanation
Indices: 2184737--2184784 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 13
2184727 TTTTTTTTCG
2184737 TTTTTTTCTTCTT
1 TTTTTTTCTTCTT
2184750 TTTTTCTTCTTCTT
1 TTTTT-TTCTTCTT
2184764 TTTTATTT-TT-TT
1 TTTT-TTTCTTCTT
2184776 ATTTTTTTC
1 -TTTTTTTC
2184785 CATTTTTTCC
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
12 5 0.16
13 11 0.35
14 14 0.45
15 1 0.03
ACGTcount: A:0.04, C:0.12, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTTTTCTTCTT
Found at i:2184773 original size:8 final size:8
Alignment explanation
Indices: 2184762--2184861 Score: 50
Period size: 8 Copynumber: 12.8 Consensus size: 8
2184752 TTTCTTCTTC
2184762 TTTTTTAT
1 TTTTTTAT
2184770 TTTTTTAT
1 TTTTTTAT
2184778 TTTTTTCCAT
1 TTTTTT--AT
*
2184788 TTTTTCCA-
1 TTTTT-TAT
2184796 -TTTTTA-
1 TTTTTTAT
* *
2184802 TATTTCAT
1 TTTTTTAT
*
2184810 TTTTTCAT
1 TTTTTTAT
2184818 TTTTTT-T
1 TTTTTTAT
**
2184825 TCATTT-T
1 TTTTTTAT
*
2184832 TTTTTCAT
1 TTTTTTAT
2184840 TTTTTTCA-
1 TTTTTT-AT
*
2184848 TTTTTCAT
1 TTTTTTAT
2184856 TTTTTT
1 TTTTTT
2184862 TATCTTTAAG
Statistics
Matches: 70, Mismatches: 14, Indels: 16
0.70 0.14 0.16
Matches are distributed among these distances:
6 1 0.01
7 18 0.26
8 42 0.60
9 2 0.03
10 7 0.10
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.78
Consensus pattern (8 bp):
TTTTTTAT
Found at i:2184862 original size:11 final size:11
Alignment explanation
Indices: 2184727--2184845 Score: 82
Period size: 11 Copynumber: 11.5 Consensus size: 11
2184717 CCCCCTTTTA
*
2184727 TTTTTTTTCGT
1 TTTTTTTTCAT
2184738 TTTTTTCTTC-T
1 TTTTTT-TTCAT
2184749 TTTTTTCTTC-T
1 TTTTTT-TTCAT
*
2184760 TCTTTTTT-A-
1 TTTTTTTTCAT
2184769 -TTTTTTT-A-
1 TTTTTTTTCAT
*
2184777 TTTTTTTCCA-
1 TTTTTTTTCAT
*
2184787 -TTTTTTCCAT
1 TTTTTTTTCAT
2184797 TTTTATATTTCA-
1 TTTT-T-TTTCAT
2184809 --TTTTTTCAT
1 TTTTTTTTCAT
2184818 TTTTTTTTCAT
1 TTTTTTTTCAT
2184829 TTTTTTTTCAT
1 TTTTTTTTCAT
2184840 TTTTTT
1 TTTTTT
2184846 CATTTTTCAT
Statistics
Matches: 93, Mismatches: 4, Indels: 22
0.78 0.03 0.18
Matches are distributed among these distances:
8 12 0.13
9 16 0.17
10 5 0.05
11 52 0.56
12 4 0.04
13 4 0.04
ACGTcount: A:0.08, C:0.12, G:0.01, T:0.79
Consensus pattern (11 bp):
TTTTTTTTCAT
Found at i:2191198 original size:17 final size:17
Alignment explanation
Indices: 2191178--2191211 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
2191168 TAAAATTACC
2191178 CAACCATTAGAAAGATA
1 CAACCATTAGAAAGATA
*
2191195 CAACCTTTAGAAAGATA
1 CAACCATTAGAAAGATA
2191212 AAAAATATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.18, G:0.12, T:0.21
Consensus pattern (17 bp):
CAACCATTAGAAAGATA
Found at i:2193062 original size:20 final size:20
Alignment explanation
Indices: 2193008--2193053 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
2192998 ACAAAACATG
2193008 GGTGGCCAGCAAATATTAGT
1 GGTGGCCAGCAAATATTAGT
2193028 GGTGGCCAGCAAATATTAGT
1 GGTGGCCAGCAAATATTAGT
2193048 GGTGGC
1 GGTGGC
2193054 AGTATAATAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.26, C:0.15, G:0.35, T:0.24
Consensus pattern (20 bp):
GGTGGCCAGCAAATATTAGT
Found at i:2193737 original size:3 final size:3
Alignment explanation
Indices: 2193731--2193762 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
2193721 ACATTATTAT
2193731 TAA TAA TAA -AA TAA TAA T-A TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
2193763 GATAGCATCC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
2 4 0.15
3 23 0.85
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:2193747 original size:11 final size:11
Alignment explanation
Indices: 2193731--2193761 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
2193721 ACATTATTAT
2193731 TAATAATAAAA
1 TAATAATAAAA
*
2193742 TAATAATATAA
1 TAATAATAAAA
2193753 TAATAATAA
1 TAATAATAA
2193762 TGATAGCATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
TAATAATAAAA
Found at i:2196161 original size:14 final size:15
Alignment explanation
Indices: 2196142--2196170 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
2196132 TCATTTTCTT
2196142 AATATTAA-AAAATA
1 AATATTAATAAAATA
2196156 AATATTAATAAAATA
1 AATATTAATAAAATA
2196171 TTTCTCTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AATATTAATAAAATA
Found at i:2196210 original size:9 final size:9
Alignment explanation
Indices: 2196179--2196203 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
2196169 TATTTCTCTA
2196179 AAAATAATT
1 AAAATAATT
2196188 AAAATAATT
1 AAAATAATT
2196197 AAAATAA
1 AAAATAA
2196204 AATAAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (9 bp):
AAAATAATT
Found at i:2197843 original size:3 final size:3
Alignment explanation
Indices: 2197819--2197938 Score: 151
Period size: 3 Copynumber: 41.0 Consensus size: 3
2197809 TGAGCTCTTG
* * *
2197819 TAA TAG TAA TAA TAG TAG TAA TAA TAA TAA TAA TAA TAA TAA TAAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA
2197865 TAA TAA -AA TAA -AA TAA TAA TAA TAA TAA TAA TAA TAA -ACA -AA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA
*
2197907 TAA -AA TAA TAA TAA TAA TAA TAA TAA AAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2197939 AAACAAAATG
Statistics
Matches: 105, Mismatches: 6, Indels: 12
0.85 0.05 0.10
Matches are distributed among these distances:
2 8 0.08
3 94 0.90
4 3 0.03
ACGTcount: A:0.68, C:0.01, G:0.03, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:2198503 original size:20 final size:20
Alignment explanation
Indices: 2198473--2198524 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
2198463 GCTAAAGTGG
* *
2198473 TCAAT-ATTTTTTCGACGGA
1 TCAATCATTTTTACAACGGA
*
2198492 TCGATCATTTTTACAACGGA
1 TCAATCATTTTTACAACGGA
*
2198512 TTAATCATTTTTA
1 TCAATCATTTTTA
2198525 TGAAAAATTA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 4 0.15
20 23 0.85
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.44
Consensus pattern (20 bp):
TCAATCATTTTTACAACGGA
Found at i:2199408 original size:26 final size:26
Alignment explanation
Indices: 2199372--2199422 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
2199362 TGTTCAATTC
*
2199372 GTTTATGTTCACGAATAAACTCTTTT
1 GTTTATGTTCACGAACAAACTCTTTT
* *
2199398 GTTTATGTTCATGAACAAGCTCTTT
1 GTTTATGTTCACGAACAAACTCTTT
2199423 AAATGGCTCG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.25, C:0.16, G:0.14, T:0.45
Consensus pattern (26 bp):
GTTTATGTTCACGAACAAACTCTTTT
Found at i:2199659 original size:23 final size:23
Alignment explanation
Indices: 2199603--2199659 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
2199593 TCTAAATATA
* *
2199603 TAAATGAACATGTTCGTGAACGC
1 TAAACGAACGTGTTCGTGAACGC
*
2199626 TAAACCG-ACGTGTTCGTGAATGC
1 TAAA-CGAACGTGTTCGTGAACGC
2199649 TAAACGAACGT
1 TAAACGAACGT
2199660 TAAGCAAACA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 2 0.07
23 26 0.90
24 1 0.03
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (23 bp):
TAAACGAACGTGTTCGTGAACGC
Found at i:2204020 original size:18 final size:17
Alignment explanation
Indices: 2203997--2204057 Score: 88
Period size: 18 Copynumber: 3.5 Consensus size: 17
2203987 TTTACTTAAT
2203997 TTATTATTATTAAAATTA
1 TTATTATTATTAAAA-TA
2204015 TTATTATTATTATAAATA
1 TTATTATTATTA-AAATA
*
2204033 TTATTATTA-TAATATA
1 TTATTATTATTAAAATA
2204049 TTATTATTA
1 TTATTATTA
2204058 AATAATTATT
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
16 13 0.32
17 2 0.05
18 23 0.56
19 3 0.07
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TTATTATTATTAAAATA
Found at i:2204068 original size:3 final size:3
Alignment explanation
Indices: 2203997--2204057 Score: 68
Period size: 3 Copynumber: 20.0 Consensus size: 3
2203987 TTTACTTAAT
** * * *
2203997 TTA TTA TTA TTA AAA TTA TTA TTA TTA TTA TAA ATA TTA TTA TTA TAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2204045 TATA TTA TTA TTA
1 T-TA TTA TTA TTA
2204058 AATAATTATT
Statistics
Matches: 47, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
3 45 0.96
4 2 0.04
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (3 bp):
TTA
Found at i:2210941 original size:2 final size:2
Alignment explanation
Indices: 2210934--2210971 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
2210924 TTATCCTTTA
2210934 AT AT 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 AT AT
2210972 CCTTTATTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2211290 original size:9 final size:9
Alignment explanation
Indices: 2211278--2211339 Score: 63
Period size: 9 Copynumber: 6.7 Consensus size: 9
2211268 AAAGAAGAAG
2211278 GGAAAAAAA
1 GGAAAAAAA
2211287 GGAAAAAAA
1 GGAAAAAAA
2211296 -GAAAAAGGAA
1 GGAAAAA--AA
**
2211306 AAAACAAAAA
1 GGAA-AAAAA
2211316 GGAAAAAAA
1 GGAAAAAAA
*
2211325 AGAAAAAAA
1 GGAAAAAAA
2211334 GGAAAA
1 GGAAAA
2211340 TTGAATCAAG
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
8 6 0.14
9 27 0.61
10 6 0.14
11 2 0.05
12 3 0.07
ACGTcount: A:0.79, C:0.02, G:0.19, T:0.00
Consensus pattern (9 bp):
GGAAAAAAA
Found at i:2211294 original size:8 final size:8
Alignment explanation
Indices: 2211281--2211339 Score: 52
Period size: 8 Copynumber: 7.5 Consensus size: 8
2211271 GAAGAAGGGA
2211281 AAAAAAGG
1 AAAAAAGG
*
2211289 AAAAAAAG
1 AAAAAAGG
2211297 -AAAAAGG
1 AAAAAAGG
2211304 AAAAAA--
1 AAAAAAGG
*
2211310 CAAAAAGG
1 AAAAAAGG
*
2211318 AAAAAAAAGA
1 --AAAAAAGG
2211328 AAAAAAGG
1 AAAAAAGG
2211336 AAAA
1 AAAA
2211340 TTGAATCAAG
Statistics
Matches: 40, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
6 5 0.12
7 6 0.15
8 23 0.57
10 6 0.15
ACGTcount: A:0.81, C:0.02, G:0.17, T:0.00
Consensus pattern (8 bp):
AAAAAAGG
Found at i:2211302 original size:15 final size:15
Alignment explanation
Indices: 2211282--2211331 Score: 75
Period size: 14 Copynumber: 3.3 Consensus size: 15
2211272 AAGAAGGGAA
2211282 AAAAAGGAAAAAAAG
1 AAAAAGGAAAAAAAG
*
2211297 AAAAAGG-AAAAAAC
1 AAAAAGGAAAAAAAG
2211311 AAAAAGGAAAAAAAAG
1 AAAAAGG-AAAAAAAG
2211327 AAAAA
1 AAAAA
2211332 AAGGAAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
14 13 0.42
15 7 0.23
16 11 0.35
ACGTcount: A:0.82, C:0.02, G:0.16, T:0.00
Consensus pattern (15 bp):
AAAAAGGAAAAAAAG
Found at i:2211303 original size:25 final size:25
Alignment explanation
Indices: 2211262--2211339 Score: 85
Period size: 24 Copynumber: 3.2 Consensus size: 25
2211252 TACTTATCCA
*
2211262 GAAAAGAAAGAAGAAGGGAAAAAAAG
1 GAAAAGAAAGAA-AAAGGAAAAAAAG
2211288 GAAAA-AAAGAAAAAGGAAAAAACA-
1 GAAAAGAAAGAAAAAGGAAAAAA-AG
2211312 -AAAAGGAAA-AAAAA-GAAAAAAAG
1 GAAAA-GAAAGAAAAAGGAAAAAAAG
2211335 GAAAA
1 GAAAA
2211340 TTGAATCAAG
Statistics
Matches: 46, Mismatches: 1, Indels: 12
0.78 0.02 0.20
Matches are distributed among these distances:
22 1 0.02
23 11 0.24
24 19 0.41
25 10 0.22
26 5 0.11
ACGTcount: A:0.77, C:0.01, G:0.22, T:0.00
Consensus pattern (25 bp):
GAAAAGAAAGAAAAAGGAAAAAAAG
Found at i:2215323 original size:54 final size:53
Alignment explanation
Indices: 2215241--2215395 Score: 201
Period size: 54 Copynumber: 2.9 Consensus size: 53
2215231 TTGAGAAATT
*
2215241 TGAGCAGAAGCCACAGAAAAGGATGAATGTGTTGTCAAATGCTTTACGAACATC
1 TGAGCAGAAACCACAGAAAAGGATGAATGTGTTGTCAAATG-TTTACGAACATC
* *
2215295 TGAGCAGAAACCACAGAAAAGGATGAATGTGTTGTCAAGTGTTT---TACATC
1 TGAGCAGAAACCACAGAAAAGGATGAATGTGTTGTCAAATGTTTACGAACATC
* * *
2215345 TGAGCAGAAACCACATG-AGATGATGCATGTGTTGTCAAATGTTTTACGAAC
1 TGAGCAGAAACCACA-GAAAAGGATGAATGTGTTGTCAAATG-TTTACGAAC
2215396 CAGTTATTCT
Statistics
Matches: 88, Mismatches: 8, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
50 40 0.45
51 4 0.05
53 3 0.03
54 41 0.47
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.25
Consensus pattern (53 bp):
TGAGCAGAAACCACAGAAAAGGATGAATGTGTTGTCAAATGTTTACGAACATC
Found at i:2215375 original size:50 final size:50
Alignment explanation
Indices: 2215241--2215391 Score: 196
Period size: 50 Copynumber: 2.9 Consensus size: 50
2215231 TTGAGAAATT
* *
2215241 TGAGCAGAAGCCACAGAAAAGGATGAATGTGTTGTCAAATGCTTTACGAACATC
1 TGAGCAGAAACCACAGAAAAGGATGAATGTGTTGTCAAATG-TTT---TACATC
*
2215295 TGAGCAGAAACCACAGAAAAGGATGAATGTGTTGTCAAGTGTTTTACATC
1 TGAGCAGAAACCACAGAAAAGGATGAATGTGTTGTCAAATGTTTTACATC
* * *
2215345 TGAGCAGAAACCACATG-AGATGATGCATGTGTTGTCAAATGTTTTAC
1 TGAGCAGAAACCACA-GAAAAGGATGAATGTGTTGTCAAATGTTTTAC
2215392 GAACCAGTTA
Statistics
Matches: 89, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
50 46 0.52
51 1 0.01
53 3 0.03
54 39 0.44
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (50 bp):
TGAGCAGAAACCACAGAAAAGGATGAATGTGTTGTCAAATGTTTTACATC
Found at i:2215815 original size:22 final size:22
Alignment explanation
Indices: 2215762--2215816 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
2215752 ATCTACACTC
*
2215762 TTCAAAGATAATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
*
2215784 TTTAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
2215806 TTCAAAGATGA
1 TTCAAAGATGA
2215817 AAGCTTTATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.40
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:2216621 original size:76 final size:76
Alignment explanation
Indices: 2216495--2217127 Score: 1158
Period size: 76 Copynumber: 8.3 Consensus size: 76
2216485 TTCCCACATA
*
2216495 TGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACC
1 TGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
2216560 TTAGGGTCATC
66 TTAGGGTCATC
2216571 TGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
1 TGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
*
2216636 TTAGGGTAATC
66 TTAGGGTCATC
*
2216647 TGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAAAGCC
1 TGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
2216712 TTAGGGTCATC
66 TTAGGGTCATC
2216723 TGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
1 TGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
2216788 TTAGGGTCATC
66 TTAGGGTCATC
**
2216799 TACAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
1 TGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
2216864 TTAGGGTCATC
66 TTAGGGTCATC
2216875 TGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
1 TGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
2216940 TTAGGGTCATC
66 TTAGGGTCATC
2216951 TGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
1 TGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
2217016 TTAGGGTCATC
66 TTAGGGTCATC
* * * *
2217027 TGTAAGTCCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTATGATGTTTTTAAAACC
1 TGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
*
2217092 TTCGGGTCATC
66 TTAGGGTCATC
* *
2217103 TGTAAGCCCTTCAGTGCATGATGTT
1 TGTAAGTCCTACAGTGCATGATGTT
2217128 GTTAAGACCT
Statistics
Matches: 541, Mismatches: 16, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 541 1.00
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (76 bp):
TGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
TTAGGGTCATC
Found at i:2217356 original size:3 final size:3
Alignment explanation
Indices: 2217285--2217345 Score: 74
Period size: 3 Copynumber: 21.0 Consensus size: 3
2217275 TTTACTTAAT
**
2217285 TTA TTA TTA TTA AAA TTA TTA TTA TTA TTA TTA TTA -TA TTA -TA TATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
2217332 TTA -TA TTA TTA TTA
1 TTA TTA TTA TTA TTA
2217346 AATAATTATT
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
2 6 0.12
3 41 0.82
4 3 0.06
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:2224292 original size:23 final size:23
Alignment explanation
Indices: 2224266--2224345 Score: 99
Period size: 23 Copynumber: 3.4 Consensus size: 23
2224256 TTATTATTCA
2224266 CGAACATGTTTGTTTAACGTTAT
1 CGAACATGTTTGTTTAACGTTAT
*
2224289 CGAACTTGTTTGTTTAACGTTAT
1 CGAACATGTTTGTTTAACGTTAT
* * *
2224312 CGAACTTGTTCGTTTATATGTTCAT
1 CGAACATGTTTGTTTA-ACGTT-AT
2224337 -GAACATGTT
1 CGAACATGTT
2224346 AATTTAGCGT
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
23 37 0.73
24 12 0.24
25 2 0.04
ACGTcount: A:0.24, C:0.14, G:0.17, T:0.45
Consensus pattern (23 bp):
CGAACATGTTTGTTTAACGTTAT
Found at i:2224614 original size:26 final size:26
Alignment explanation
Indices: 2224583--2224635 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
2224573 TGAGAACCGG
*
2224583 ATAAACGATG-TTGTTTATGAACATAA
1 ATAAACGA-GCTTGTTCATGAACATAA
*
2224609 ATAAACGAGCTTGTTCGTGAACATAA
1 ATAAACGAGCTTGTTCATGAACATAA
2224635 A
1 A
2224636 CGAACCAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 1 0.04
26 23 0.96
ACGTcount: A:0.42, C:0.11, G:0.17, T:0.30
Consensus pattern (26 bp):
ATAAACGAGCTTGTTCATGAACATAA
Found at i:2232268 original size:23 final size:24
Alignment explanation
Indices: 2232242--2232287 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
2232232 TTTTAATATG
2232242 TATATA-TAATTTAAAAAGAAAAT
1 TATATATTAATTTAAAAAGAAAAT
**
2232265 TATATATTTTTTTAAAAAGAAAA
1 TATATATTAATTTAAAAAGAAAA
2232288 CACAAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (24 bp):
TATATATTAATTTAAAAAGAAAAT
Found at i:2238020 original size:18 final size:18
Alignment explanation
Indices: 2237994--2238037 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
2237984 TTAAAAAGTA
*
2237994 TAATGATTTATTTAAAAT
1 TAATTATTTATTTAAAAT
2238012 TAATTATTTA-TTAAAAT
1 TAATTATTTATTTAAAAT
2238029 T--TTATTTAT
1 TAATTATTTAT
2238038 AATTTTAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 7 0.29
17 8 0.33
18 9 0.38
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (18 bp):
TAATTATTTATTTAAAAT
Found at i:2248595 original size:2 final size:2
Alignment explanation
Indices: 2248588--2248619 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
2248578 ATTCTTCAAT
2248588 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2248620 CTAAACACGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2249325 original size:55 final size:55
Alignment explanation
Indices: 2249197--2249755 Score: 778
Period size: 55 Copynumber: 10.2 Consensus size: 55
2249187 ATCATCGGGA
* ** ** * * * *
2249197 TGCACATATAGTGCTGATACGGTCATTCACAAACTCATTGTGAATTACGT-AGGT
1 TGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCGTGGGGT
* * **
2249251 TGCACACATAGTGCCAATACGAAAATTCATAAACTCATTATGAATTTCATCAGGT
1 TGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCGTGGGGT
*
2249306 TGCACACATAGTGCCAATACGGAAATTCATAAACTAATTATGAATTTCGTGGGGT
1 TGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCGTGGGGT
*
2249361 TGTACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCGTGGGGT
1 TGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCGTGGGGT
* *
2249416 TGCACACATAGTGCCAATACGAAAATTCATAAACTTATTATGAATTTCGTGGGGT
1 TGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCGTGGGGT
* * * * * * *
2249471 TGTACACATAGCGCTAATACAGAAATTCATAAACTCATTATAAATTTTGTGAGGT
1 TGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCGTGGGGT
* **
2249526 TGCACACATAGTGCCAATATGGAAATTCATAAACTCATTATGAATTTCAAGGGGT
1 TGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCGTGGGGT
* *
2249581 TACACATATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCGTGGGGT
1 TGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCGTGGGGT
** *
2249636 TGCACACATAGTAACAATACGGAAATTCATAAACTCATTATGAATTTCTTGGGGT
1 TGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCGTGGGGT
* * * *
2249691 TGCACATATAGTTCCAATATGGAAATTCATAAACTCATTATGAATTTTGTGGGGT
1 TGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCGTGGGGT
*
2249746 TGTACACATA
1 TGCACACATA
2249756 TATATTAAAC
Statistics
Matches: 447, Mismatches: 57, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
54 40 0.09
55 407 0.91
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (55 bp):
TGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCGTGGGGT
Found at i:2250538 original size:23 final size:23
Alignment explanation
Indices: 2250461--2250554 Score: 75
Period size: 23 Copynumber: 4.1 Consensus size: 23
2250451 CACCAAAGTG
2250461 CCACATAGAAATATCCC-ATAGGA
1 CCACATAGAAATATCCCGA-AGGA
* *
2250484 CCACATAGATATATCCCGAA-AA
1 CCACATAGAAATATCCCGAAGGA
* ** *
2250506 ACAGTGTAGAAATTTCCCGAAGGA
1 CCA-CATAGAAATATCCCGAAGGA
* * *
2250530 CCACATAGAATTGTCCCAAAGGA
1 CCACATAGAAATATCCCGAAGGA
2250553 CC
1 CC
2250555 GCGTAGAACC
Statistics
Matches: 54, Mismatches: 14, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
22 3 0.06
23 47 0.87
24 4 0.07
ACGTcount: A:0.40, C:0.26, G:0.16, T:0.18
Consensus pattern (23 bp):
CCACATAGAAATATCCCGAAGGA
Found at i:2250561 original size:23 final size:22
Alignment explanation
Indices: 2250511--2250562 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
2250501 GAAAAACAGT
*
2250511 GTAGAAATTTCCCGAAGGACCAC
1 GTAG-AATTTCCCAAAGGACCAC
* *
2250534 ATAGAATTGTCCCAAAGGACCGC
1 GTAGAATT-TCCCAAAGGACCAC
2250557 GTAGAA
1 GTAGAA
2250563 CCCTCGACTC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
22 4 0.17
23 20 0.83
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (22 bp):
GTAGAATTTCCCAAAGGACCAC
Found at i:2250697 original size:45 final size:45
Alignment explanation
Indices: 2250639--2250726 Score: 113
Period size: 45 Copynumber: 2.0 Consensus size: 45
2250629 TTATAACAGT
*
2250639 TCACATAACTTATATCACATATGCATGTAATAATATAGCTCATTG
1 TCACATAACTTATATCACATATGCATATAATAATATAGCTCATTG
** * * * *
2250684 TCACATAGTTTATATCACATTTTCATATAATCATATAGGTCAT
1 TCACATAACTTATATCACATATGCATATAATAATATAGCTCAT
2250727 ATAACACGTA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.36, C:0.17, G:0.08, T:0.39
Consensus pattern (45 bp):
TCACATAACTTATATCACATATGCATATAATAATATAGCTCATTG
Found at i:2252714 original size:20 final size:20
Alignment explanation
Indices: 2252691--2252730 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
2252681 ATAAGCATTC
2252691 AAATTCAAACATCCAAAATA
1 AAATTCAAACATCCAAAATA
*
2252711 AAATTTAAACATCCAAAATA
1 AAATTCAAACATCCAAAATA
2252731 TATCAATCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.60, C:0.17, G:0.00, T:0.23
Consensus pattern (20 bp):
AAATTCAAACATCCAAAATA
Found at i:2261726 original size:11 final size:11
Alignment explanation
Indices: 2261710--2261734 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
2261700 AAAACACAGT
2261710 AGAAAGGATGA
1 AGAAAGGATGA
2261721 AGAAAGGATGA
1 AGAAAGGATGA
2261732 AGA
1 AGA
2261735 GAAATCTAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.36, T:0.08
Consensus pattern (11 bp):
AGAAAGGATGA
Found at i:2267703 original size:23 final size:23
Alignment explanation
Indices: 2267669--2267723 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
2267659 AGAATATGGA
2267669 CCGAAGTG-CCACATAGAAATATC
1 CCGAAG-GACCACATAGAAATATC
* * *
2267692 CTGAAGGACCACATAGATATCTC
1 CCGAAGGACCACATAGAAATATC
2267715 CCGAAGGAC
1 CCGAAGGAC
2267724 TGCGTAGAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 1 0.04
23 26 0.96
ACGTcount: A:0.36, C:0.27, G:0.20, T:0.16
Consensus pattern (23 bp):
CCGAAGGACCACATAGAAATATC
Found at i:2273548 original size:156 final size:156
Alignment explanation
Indices: 2273259--2273579 Score: 500
Period size: 156 Copynumber: 2.1 Consensus size: 156
2273249 TATATAGTTT
* * *
2273259 ATAAG-ACATTCTTCAAGTATATATATATTAAACACGTCTACTCCAATATGCAATACTAGTTATT
1 ATAAGTACATTCTTCAAGTATATATATAATAAACACATCGACTCCAATATGCAATACTAGTTATT
* * *
2273323 GTTATCCATATTTAAAATCGGTATAAGACAATTCAGTTAATCTATTACAAACCAGTTTCCAAAAT
66 ATTATCCATATTTAAAACCAGTATAAGACAATTCAGTTAATCTATTACAAACCAGTTTCCAAAAT
*
2273388 ATTTAAATAGAGCTAATAGGGCATTC
131 ATTTAAATAGAGCTAATAGGACATTC
* * * *
2273414 ATAAGTACATTCTTCAATTATATATATAATAAACACATCGACTTCAATTTGCAATACTAGTTCTT
1 ATAAGTACATTCTTCAAGTATATATATAATAAACACATCGACTCCAATATGCAATACTAGTTATT
* * *
2273479 ATTATCCATATTTAAAACCAGTATCAGACAATTCAGTTAATTTATTACAAACCAGTTTCTAAAAT
66 ATTATCCATATTTAAAACCAGTATAAGACAATTCAGTTAATCTATTACAAACCAGTTTCCAAAAT
2273544 ATTTAAATAGAGCTAATAGGACATTC
131 ATTTAAATAGAGCTAATAGGACATTC
*
2273570 ATAACTACAT
1 ATAAGTACAT
2273580 GCCACTAAAC
Statistics
Matches: 150, Mismatches: 15, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
155 5 0.03
156 145 0.97
ACGTcount: A:0.40, C:0.16, G:0.09, T:0.35
Consensus pattern (156 bp):
ATAAGTACATTCTTCAAGTATATATATAATAAACACATCGACTCCAATATGCAATACTAGTTATT
ATTATCCATATTTAAAACCAGTATAAGACAATTCAGTTAATCTATTACAAACCAGTTTCCAAAAT
ATTTAAATAGAGCTAATAGGACATTC
Found at i:2274204 original size:111 final size:110
Alignment explanation
Indices: 2274045--2274314 Score: 398
Period size: 111 Copynumber: 2.5 Consensus size: 110
2274035 TGATACGGTC
* * * * *
2274045 ATTCACAAATTCATTGTGAATTACGT-AGGTTGCACACATAGTGCCAATATGGAAATTCATAAAC
1 ATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATATGGAAATTCATAAAC
* *
2274109 TCATTATGAATTTCGTGAGGTTGCACACATAGCGCCAATACGGAA
66 TCATTATGAATTTCGTGAGGTTACACACATAGCGCCAATACGAAA
**
2274154 ATTCATAAACTCATTATGAATTTTTTTGGGGTTGCACACATAGTGCCAATATGGAAATTCATAAA
1 ATTCATAAACTCATTATGAA-TTTCGTGGGGTTGCACACATAGTGCCAATATGGAAATTCATAAA
* *
2274219 CTCATTATGAATTTTGTGGGGTTACACACATAGCGCCAATACGAAA
65 CTCATTATGAATTTCGTGAGGTTACACACATAGCGCCAATACGAAA
** *
2274265 ATTCATAAACTCATTATTTATTTCGTGGGGTTGCACACATAATGCCAATA
1 ATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATA
2274315 CAAAAATTCG
Statistics
Matches: 143, Mismatches: 16, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
109 17 0.12
110 30 0.21
111 96 0.67
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.31
Consensus pattern (110 bp):
ATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATATGGAAATTCATAAAC
TCATTATGAATTTCGTGAGGTTACACACATAGCGCCAATACGAAA
Found at i:2274323 original size:55 final size:55
Alignment explanation
Indices: 2274045--2274315 Score: 364
Period size: 55 Copynumber: 4.9 Consensus size: 55
2274035 TGATACGGTC
* * * * * *
2274045 ATTCACAAATTCATTGTGAATTACGT-AGGTTGCACACATAGTGCCAATATGGAA
1 ATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACGGAA
* *
2274099 ATTCATAAACTCATTATGAATTTCGTGAGGTTGCACACATAGCGCCAATACGGAA
1 ATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACGGAA
** *
2274154 ATTCATAAACTCATTATGAATTTTTTTGGGGTTGCACACATAGTGCCAATATGGAA
1 ATTCATAAACTCATTATGAA-TTTCGTGGGGTTGCACACATAGTGCCAATACGGAA
* * * *
2274210 ATTCATAAACTCATTATGAATTTTGTGGGGTTACACACATAGCGCCAATACGAAA
1 ATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACGGAA
** *
2274265 ATTCATAAACTCATTATTTATTTCGTGGGGTTGCACACATAATGCCAATAC
1 ATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATAC
2274316 AAAAATTCGG
Statistics
Matches: 193, Mismatches: 22, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
54 22 0.11
55 121 0.63
56 50 0.26
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (55 bp):
ATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACGGAA
Found at i:2274328 original size:33 final size:33
Alignment explanation
Indices: 2274291--2274353 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
2274281 TTTATTTCGT
2274291 GGGGTTGCACACATAATGCCAATACAAAAATTC
1 GGGGTTGCACACATAATGCCAATACAAAAATTC
* * *
2274324 GGGGTTGCATACATAGTTCCAATACAAAAA
1 GGGGTTGCACACATAATGCCAATACAAAAA
2274354 ATCATAAACT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.22
Consensus pattern (33 bp):
GGGGTTGCACACATAATGCCAATACAAAAATTC
Found at i:2274393 original size:55 final size:55
Alignment explanation
Indices: 2274324--2274723 Score: 554
Period size: 55 Copynumber: 7.3 Consensus size: 55
2274314 ACAAAAATTC
* * * *
2274324 GGGGTTGCATACATAGTTCCAATACAAAAAATCATAAACTCATTATGAATTTCGT
1 GGGGTTGCACACATAGTGCCAATACGAAAATTCATAAACTCATTATGAATTTCGT
* * * *
2274379 GAGGTTGCACACATAGTTCTAATACGGAAATAATTCATAAACTCATTATGAATTTTGT
1 GGGGTTGCACACATAGTGCCAATAC-G-AA-AATTCATAAACTCATTATGAATTTCGT
* * * *
2274437 GGGGTTGCAGACATAGTGCCAATATGGAAATTCATAAACTCATTATGAATTTTGT
1 GGGGTTGCACACATAGTGCCAATACGAAAATTCATAAACTCATTATGAATTTCGT
* * *
2274492 GGGGTTGCACACATAGTGCCAATATGAAAATTTATAAACTCATTATGAATTTCAT
1 GGGGTTGCACACATAGTGCCAATACGAAAATTCATAAACTCATTATGAATTTCGT
* *
2274547 GGGG--G-ACACATAGTGCTAATACGGAAATTCATAAACTCATTATGAATTTCGT
1 GGGGTTGCACACATAGTGCCAATACGAAAATTCATAAACTCATTATGAATTTCGT
* *
2274599 GGGGTTGCACACATAGTGTCAATACGAAAATTCATAAACTCATTCTGAATTTCGT
1 GGGGTTGCACACATAGTGCCAATACGAAAATTCATAAACTCATTATGAATTTCGT
* * *
2274654 GGGGTTGCACACATAGTGGCAATACGGAAATTCATAAACTTATTATGAATTTCGT
1 GGGGTTGCACACATAGTGCCAATACGAAAATTCATAAACTCATTATGAATTTCGT
2274709 GGGGTTGCACACATA
1 GGGGTTGCACACATA
2274724 TACATTAAAC
Statistics
Matches: 309, Mismatches: 30, Indels: 12
0.88 0.09 0.03
Matches are distributed among these distances:
52 46 0.15
53 1 0.00
54 1 0.00
55 212 0.69
56 1 0.00
57 3 0.01
58 45 0.15
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.31
Consensus pattern (55 bp):
GGGGTTGCACACATAGTGCCAATACGAAAATTCATAAACTCATTATGAATTTCGT
Found at i:2274531 original size:256 final size:254
Alignment explanation
Indices: 2274072--2274723 Score: 783
Period size: 256 Copynumber: 2.5 Consensus size: 254
2274062 GAATTACGTA
*** *
2274072 GGTTGCACACATAGTGCCAATATGGAAATTCATAAACTCATTATGAATTTCGTGAGGTTGCACAC
1 GGTTGCACACATAGTGCCAATACAAAAAATCATAAACTCATTATGAATTTCGTGAGGTTGCACAC
*
2274137 ATAGCGCCAATACGGAAATTCATAAACTCATTATGAATTTTTTTGGGGTTGCACACATAGTGCCA
66 ATAGCGCCAATACGGAAATTCATAAACTCATTATGAATTTTTGTGGGGTTGCACACATAGTGCCA
2274202 ATATGGAAATTCATAAACTCATTATGAATTTTGTGGGGTTACACACATAGCGCCAATACGAAAAT
131 ATATGGAAATTCATAAACTCATTATGAATTTTGTGGGGTTACACACATAGCGCCAATACGAAAAT
2274267 TCATAAACTCATTATTTATTTCGTGGGGTTGCACACATAATGCCAATACAAAAATTCGG
196 TCATAAACTCATTATTTATTTCGTGGGGTTGCACACATAATGCCAATACAAAAATTCGG
* *
2274326 GGTTGCATACATAGTTCCAATACAAAAAATCATAAACTCATTATGAATTTCGTGAGGTTGCACAC
1 GGTTGCACACATAGTGCCAATACAAAAAATCATAAACTCATTATGAATTTCGTGAGGTTGCACAC
** * *
2274391 ATAGTTCTAATACGGAAATAATTCATAAACTCATTATGAA-TTTTGTGGGGTTGCAGACATAGTG
66 ATAGCGCCAATACGG--A-AATTCATAAACTCATTATGAATTTTTGTGGGGTTGCACACATAGTG
* * *
2274455 CCAATATGGAAATTCATAAACTCATTATGAATTTTGTGGGGTTGCACACATAGTGCCAATATGAA
128 CCAATATGGAAATTCATAAACTCATTATGAATTTTGTGGGGTTACACACATAGCGCCAATACGAA
* ** * *
2274520 AATTTATAAACTCATTATGAATTTCATGGGG--G-ACACATAGTGCTAATACGGAAATTCATAAA
193 AATTCATAAACTCATTATTTATTTCGTGGGGTTGCACACATAATGC-----C----A---AT--A
*
2274582 CTCATTATGAATTTCGTGG
244 --CA--A--AAATTC--GG
* * * * *
2274601 GGTTGCACACATAGTGTCAATACGAAAATTCATAAACTCATTCTGAATTTCGTGGGGTTGCACAC
1 GGTTGCACACATAGTGCCAATACAAAAAATCATAAACTCATTATGAATTTCGTGAGGTTGCACAC
* * * *
2274666 ATAGTGGCAATACGGAAATTCATAAACTTATTATGAA-TTTCGTGGGGTTGCACACATA
66 ATAGCGCCAATACGGAAATTCATAAACTCATTATGAATTTTTGTGGGGTTGCACACATA
2274724 TACATTAAAC
Statistics
Matches: 340, Mismatches: 33, Indels: 32
0.84 0.08 0.08
Matches are distributed among these distances:
253 10 0.03
254 72 0.21
256 112 0.33
257 21 0.06
258 1 0.00
262 1 0.00
265 2 0.01
267 1 0.00
269 2 0.01
271 1 0.00
272 39 0.11
273 6 0.02
275 72 0.21
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (254 bp):
GGTTGCACACATAGTGCCAATACAAAAAATCATAAACTCATTATGAATTTCGTGAGGTTGCACAC
ATAGCGCCAATACGGAAATTCATAAACTCATTATGAATTTTTGTGGGGTTGCACACATAGTGCCA
ATATGGAAATTCATAAACTCATTATGAATTTTGTGGGGTTACACACATAGCGCCAATACGAAAAT
TCATAAACTCATTATTTATTTCGTGGGGTTGCACACATAATGCCAATACAAAAATTCGG
Found at i:2274595 original size:107 final size:108
Alignment explanation
Indices: 2274355--2274723 Score: 535
Period size: 107 Copynumber: 3.4 Consensus size: 108
2274345 ATACAAAAAA
* * *
2274355 TCATAAACTCATTATGAATTTCGTGAGGTTGCACACATAGTTCTAATACGGAAATAATTCATAAA
1 TCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATAC-G-AA-AATTCATAAA
* * *
2274420 CTCATTATGAATTTTGTGGGGTTGCAGACATAGTGCCAATATGGAAAT
63 CTCATTATGAATTTCGTGGGG-TGCACACATAGTG-CAATACGGAAAT
* * *
2274468 TCATAAACTCATTATGAATTTTGTGGGGTTGCACACATAGTGCCAATATGAAAATTTATAAACTC
1 TCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACGAAAATTCATAAACTC
*
2274533 ATTATGAATTTCATGGGG-G-ACACATAGTGCTAATACGGAAAT
66 ATTATGAATTTCGTGGGGTGCACACATAGTGC-AATACGGAAAT
*
2274575 TCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTGTCAATACGAAAATTCATAAACTC
1 TCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACGAAAATTCATAAACTC
*
2274640 ATTCTGAATTTCGTGGGGTTGCACACATAGTGGCAATACGGAAAT
66 ATTATGAATTTCGTGGGG-TGCACACATAGT-GCAATACGGAAAT
*
2274685 TCATAAACTTATTATGAATTTCGTGGGGTTGCACACATA
1 TCATAAACTCATTATGAATTTCGTGGGGTTGCACACATA
2274724 TACATTAAAC
Statistics
Matches: 234, Mismatches: 17, Indels: 13
0.89 0.06 0.05
Matches are distributed among these distances:
106 1 0.00
107 96 0.41
108 1 0.00
109 1 0.00
110 86 0.37
111 4 0.02
112 1 0.00
113 44 0.19
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (108 bp):
TCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACGAAAATTCATAAACTC
ATTATGAATTTCGTGGGGTGCACACATAGTGCAATACGGAAAT
Found at i:2274615 original size:162 final size:164
Alignment explanation
Indices: 2274324--2274712 Score: 557
Period size: 162 Copynumber: 2.4 Consensus size: 164
2274314 ACAAAAATTC
* * * *
2274324 GGGGTTGCATACATAGTTCCAATACAAAAAATCATAAACTCATTATGAATTTCGTGAGGTTGCAC
1 GGGGTTGCACACATAGTGCCAATACGAAAATTCATAAACTCATTATGAATTTCGTG-GG--GCAC
* * *
2274389 ACATAGTTCTAATACGGAAATAATTCATAAACTCATTATGAATTTTGTGGGGTTGCAGACATAGT
63 ACATAGTGCTAATACGG-AATAATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGT
* * *
2274454 GCCAATATGGAAATTCATAAACTCATTATGAATTTTGT
127 GCCAATACGAAAATTCATAAACTCATTATGAATTTCGT
* * * *
2274492 GGGGTTGCACACATAGTGCCAATATGAAAATTTATAAACTCATTATGAATTTCATGGGGGACACA
1 GGGGTTGCACACATAGTGCCAATACGAAAATTCATAAACTCATTATGAATTTCGTGGGGCACACA
*
2274557 TAGTGCTAATACGG-A-AATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTGTCA
66 TAGTGCTAATACGGAATAATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCA
*
2274620 ATACGAAAATTCATAAACTCATTCTGAATTTCGT
131 ATACGAAAATTCATAAACTCATTATGAATTTCGT
* * *
2274654 GGGGTTGCACACATAGTGGCAATACGGAAATTCATAAACTTATTATGAATTTCGTGGGG
1 GGGGTTGCACACATAGTGCCAATACGAAAATTCATAAACTCATTATGAATTTCGTGGGG
2274713 TTGCACACAT
Statistics
Matches: 199, Mismatches: 22, Indels: 6
0.88 0.10 0.03
Matches are distributed among these distances:
162 128 0.64
163 1 0.01
165 19 0.10
167 2 0.01
168 49 0.25
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.31
Consensus pattern (164 bp):
GGGGTTGCACACATAGTGCCAATACGAAAATTCATAAACTCATTATGAATTTCGTGGGGCACACA
TAGTGCTAATACGGAATAATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCA
ATACGAAAATTCATAAACTCATTATGAATTTCGT
Found at i:2277597 original size:18 final size:18
Alignment explanation
Indices: 2277576--2277611 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
2277566 ATTTCGTGAT
2277576 TTATAATTTTTTATAAAA
1 TTATAATTTTTTATAAAA
*
2277594 TTATAATTTTTTTTAAAA
1 TTATAATTTTTTATAAAA
2277612 AATTATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
TTATAATTTTTTATAAAA
Found at i:2277607 original size:20 final size:19
Alignment explanation
Indices: 2277582--2277633 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 19
2277572 TGATTTATAA
*
2277582 TTTTTTATAAAATTATAATT
1 TTTTTTAAAAAATTAT-ATT
2277602 TTTTTTAAAAAATTATATT
1 TTTTTTAAAAAATTATATT
2277621 TTATATTTAAAAA
1 TT-T-TTTAAAAA
2277634 GAAATAATGA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 5 0.17
20 16 0.55
21 8 0.28
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
TTTTTTAAAAAATTATATT
Found at i:2277622 original size:18 final size:18
Alignment explanation
Indices: 2277576--2277622 Score: 58
Period size: 20 Copynumber: 2.5 Consensus size: 18
2277566 ATTTCGTGAT
* *
2277576 TTATAATTTTTTATAAAA
1 TTATATTTTTTTAAAAAA
2277594 TTATAATTTTTTTTAAAAAA
1 TTAT-A-TTTTTTTAAAAAA
2277614 TTATATTTT
1 TTATATTTT
2277623 ATATTTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 8 0.32
19 2 0.08
20 15 0.60
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TTATATTTTTTTAAAAAA
Found at i:2280013 original size:23 final size:23
Alignment explanation
Indices: 2279977--2280024 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
2279967 AGTAATATTT
*
2279977 TAATATAATAATATTATGTTTTTA
1 TAATATAATAATATTAT-TTGTTA
2280001 TAATA-AATAATATTATTTGTTA
1 TAATATAATAATATTATTTGTTA
2280023 TA
1 TA
2280025 TTTAATATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 7 0.30
23 11 0.48
24 5 0.22
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (23 bp):
TAATATAATAATATTATTTGTTA
Found at i:2282285 original size:2 final size:2
Alignment explanation
Indices: 2282278--2282359 Score: 102
Period size: 2 Copynumber: 43.0 Consensus size: 2
2282268 TAATACATAC
* *
2282278 AT AT AT AT AT AT AT AT AT AT A- AT AT CAT AT A- AT GT -T AT AA
1 AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT
2282318 AT -T AT A- 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 AT AT AT AT
2282358 AT
1 AT
2282360 TTTGAATTTC
Statistics
Matches: 71, Mismatches: 3, Indels: 12
0.83 0.03 0.14
Matches are distributed among these distances:
1 5 0.07
2 64 0.90
3 2 0.03
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (2 bp):
AT
Done.