Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000260.1 Hibiscus syriacus cultivar Beakdansim tig00000477_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: 5583615
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 11 of 26
Found at i:2044280 original size:19 final size:20
Alignment explanation
Indices: 2044220--2044309 Score: 78
Period size: 19 Copynumber: 4.5 Consensus size: 20
2044210 ACTAAAACCT
* *
2044220 GTTGCGAAATT-AAATTCGT
1 GTTGCGAATTTAAAATTCGA
*
2044239 GTTGCGAATTCGAAAA-TCGA
1 GTTGCGAATT-TAAAATTCGA
2044259 GTTGCGAATTTAAAATTC-A
1 GTTGCGAATTTAAAATTCGA
* * * *
2044278 GTTCCAAATTTGAAATTCAGT
1 GTTGCGAATTTAAAATTC-GA
2044299 GTTGCGAATTT
1 GTTGCGAATTT
2044310 GACAAACGCA
Statistics
Matches: 56, Mismatches: 10, Indels: 8
0.76 0.14 0.11
Matches are distributed among these distances:
19 29 0.52
20 15 0.27
21 12 0.21
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.36
Consensus pattern (20 bp):
GTTGCGAATTTAAAATTCGA
Found at i:2044382 original size:20 final size:20
Alignment explanation
Indices: 2044353--2044410 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 20
2044343 CGATTCACAT
2044353 ATTCGCGTTGCGAATTTGGAA
1 ATTCGCGTTGCGAATTTGG-A
* *
2044374 ATT-GGGTTGCGAAATTGGA
1 ATTCGCGTTGCGAATTTGGA
*
2044393 GTTCGCGTTGCGAATTTG
1 ATTCGCGTTGCGAATTTG
2044411 TTGGTCATTT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
19 3 0.10
20 25 0.81
21 3 0.10
ACGTcount: A:0.21, C:0.12, G:0.33, T:0.34
Consensus pattern (20 bp):
ATTCGCGTTGCGAATTTGGA
Found at i:2045443 original size:8 final size:8
Alignment explanation
Indices: 2045430--2045543 Score: 110
Period size: 9 Copynumber: 13.6 Consensus size: 8
2045420 CACTTATTTA
2045430 TTTTTCAT
1 TTTTTCAT
2045438 TTTTTCATT
1 TTTTTCA-T
2045447 TTTTTCAT
1 TTTTTCAT
2045455 TTTTTCAT
1 TTTTTCAT
2045463 TTTTTCTAT
1 TTTTTC-AT
2045472 TTTTTCTAT
1 TTTTTC-AT
2045481 TTTTTCTAT
1 TTTTTC-AT
2045490 TTTTTCTAT
1 TTTTTC-AT
*
2045499 TTTTTATAT
1 TTTTT-CAT
2045508 TTTTTC--
1 TTTTTCAT
2045514 TTTTTC-T
1 TTTTTCAT
2045521 CTTTTT-AT
1 -TTTTTCAT
2045529 GCTTTTTCAT
1 --TTTTTCAT
2045539 TTTTT
1 TTTTT
2045544 GAAAATTTTA
Statistics
Matches: 96, Mismatches: 2, Indels: 16
0.84 0.02 0.14
Matches are distributed among these distances:
6 6 0.06
8 33 0.34
9 55 0.57
10 2 0.02
ACGTcount: A:0.11, C:0.11, G:0.01, T:0.77
Consensus pattern (8 bp):
TTTTTCAT
Found at i:2045450 original size:17 final size:17
Alignment explanation
Indices: 2045430--2045543 Score: 107
Period size: 17 Copynumber: 6.8 Consensus size: 17
2045420 CACTTATTTA
2045430 TTTTTCATTTTTTCATT
1 TTTTTCATTTTTTCATT
2045447 TTTTTCATTTTTTCA-T
1 TTTTTCATTTTTTCATT
2045463 TTTTTCTATTTTTTC-TAT
1 TTTTTC-ATTTTTTCAT-T
2045481 TTTTTCTATTTTTTCTATT
1 TTTTTC-ATTTTTTC-ATT
2045500 TTTTAT-ATTTTTTC-TT
1 TTTT-TCATTTTTTCATT
* *
2045516 TTTCTC--TTTTT-ATGC
1 TTTTTCATTTTTTCAT-T
2045531 TTTTTCATTTTTT
1 TTTTTCATTTTTT
2045544 GAAAATTTTA
Statistics
Matches: 83, Mismatches: 3, Indels: 22
0.77 0.03 0.20
Matches are distributed among these distances:
14 6 0.07
15 6 0.07
16 12 0.14
17 28 0.34
18 24 0.29
19 5 0.06
20 2 0.02
ACGTcount: A:0.11, C:0.11, G:0.01, T:0.77
Consensus pattern (17 bp):
TTTTTCATTTTTTCATT
Found at i:2045526 original size:9 final size:9
Alignment explanation
Indices: 2045430--2045518 Score: 125
Period size: 9 Copynumber: 10.3 Consensus size: 9
2045420 CACTTATTTA
2045430 TTTTTC-AT
1 TTTTTCTAT
2045438 TTTTTC-AT
1 TTTTTCTAT
2045446 TTTTT-TCAT
1 TTTTTCT-AT
2045455 TTTTTC-AT
1 TTTTTCTAT
2045463 TTTTTCTAT
1 TTTTTCTAT
2045472 TTTTTCTAT
1 TTTTTCTAT
2045481 TTTTTCTAT
1 TTTTTCTAT
2045490 TTTTTCTAT
1 TTTTTCTAT
*
2045499 TTTTTATAT
1 TTTTTCTAT
2045508 TTTTTCT-T
1 TTTTTCTAT
2045516 TTT
1 TTT
2045519 CTCTTTTTAT
Statistics
Matches: 75, Mismatches: 2, Indels: 8
0.88 0.02 0.09
Matches are distributed among these distances:
8 25 0.33
9 50 0.67
ACGTcount: A:0.11, C:0.10, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTTCTAT
Found at i:2046216 original size:258 final size:257
Alignment explanation
Indices: 2045719--2046645 Score: 1234
Period size: 258 Copynumber: 3.6 Consensus size: 257
2045709 TAGTTTAATG
* *
2045719 GGTAAGAAATTTTGAAAATCACTTTCTTACTTTTCAAAAATTTTATTTTCTGAAAATTTAAATGA
1 GGTAAGAAACTTTGAAAATCACTTTCTTACTTTTCAAAAATTTCATTTTCTGAAAATTTAAATGA
* * * ** * ** * *
2045784 AAAACTTTAAAAATCGCTTTCTCATTTTTCACAAACATCATATGAAAGTATCTTGCCCGGAGGTT
66 GAAACTTTGAAAATCGTTTTCTCATTTTTCAC-AACATCATATGAAAACATCCTGTTCGAAGGTC
*
2045849 TTATAGATGGCCCGAAAGACTTATCATCTTGA-TCGAAAGACTGACAGATGACATGAAGGATTTA
130 TTATAGATGGCCCGAAAGACTTATCATCTT-ACTCGAAAGACTGACAGATGACCTGAAGGATTTA
* * * *
2045913 ATCATCATGCTCGAATGACTTACTAATGGCCGGAGGACTTACCAATTTTGGAAATAGTCTACTA
194 ATCATCATGCTCGAAAGACTTACTGATGGCCGAAGGACTTACCAATTTTGAAAATAGTCTACTA
* * * *
2045977 AGTAAGAAATTTTGAAAATCACTTTCTTAATTTTCAAAAATTTCATTTTTTGAAAATCTTAAATG
1 GGTAAGAAACTTTGAAAATCACTTTCTTACTTTTCAAAAATTTCATTTTCTGAAAAT-TTAAATG
* * * *
2046042 AGAAACTTTGAAAACCGTTTTATCATTTTTCACAA-ATCATATGAAAACATCCTATTCGAAGGTA
65 AGAAACTTTGAAAATCGTTTTCTCATTTTTCACAACATCATATGAAAACATCCTGTTCGAAGGTC
* * * * * * *
2046106 TTATTGATGGCACGAAGGACTTATCGTCTTACTCGAAAGAATGACAGATGACCTAAAGGATTAAA
130 TTATAGATGGCCCGAAAGACTTATCATCTTACTCGAAAGACTGACAGATGACCTGAAGGATTTAA
2046171 TCATCATGCTCGAAAGACTTACTGATGGTCCGAAGGACTTACCAATTTTGAAAATAGTCTACTA
195 TCATCATGCTCGAAAGACTTACTGATGG-CCGAAGGACTTACCAATTTTGAAAATAGTCTACTA
* * * * *
2046235 GGTAATAAACTTTGGAAATCACTTTCTTACTTTTTAAAAATTTCATTTTCTAAAAATATTAAATT
1 GGTAAGAAACTTTGAAAATCACTTTCTTACTTTTCAAAAATTTCATTTTCTGAAAAT-TTAAATG
* * *
2046300 AGAAACTTTGAAAATTGGTTTCTCATTTTTCACAA-ATCATATGAAAACATCATGTTCGAAGGTC
65 AGAAACTTTGAAAATCGTTTTCTCATTTTTCACAACATCATATGAAAACATCCTGTTCGAAGGTC
* * *
2046364 TTATAGATGGCCCGAAAGACTTATCATCTTGCTCGAAAGACTGACAGATGACCCGAATGATTTAA
130 TTATAGATGGCCCGAAAGACTTATCATCTTACTCGAAAGACTGACAGATGACCTGAAGGATTTAA
* * * * * *
2046429 TCATCATGCTCGAAAGACTTACTGATTGCCTGAAAGACTTACCAATTATGTAAATAGTCTATTG
195 TCATCATGCTCGAAAGACTTACTGATGGCC-GAAGGACTTACCAATTTTGAAAATAGTCTACTA
* * * * *
2046493 GGTAAGAAACTTTGGAAGTCCCTTTCTTATTTTTCAAATATTTCATTTTCTGAAAATTTTAAATG
1 GGTAAGAAACTTTGAAAATCACTTTCTTACTTTTCAAAAATTTCATTTTCTGAAAA-TTTAAATG
*
2046558 AGAAACTTTGAAAATC-TCTTTCTCATTTTTCACATACATCATATGAAAACATCTTG-TCGAAGG
65 AGAAACTTTGAAAATCGT-TTTCTCATTTTTCACA-ACATCATATGAAAACATCCTGTTCGAAGG
*
2046621 TCTTATAGATGGCTCGAAAGACTTA
128 TCTTATAGATGGCCCGAAAGACTTA
2046646 ATCAAGCAAT
Statistics
Matches: 587, Mismatches: 74, Indels: 15
0.87 0.11 0.02
Matches are distributed among these distances:
256 1 0.00
257 104 0.18
258 396 0.67
259 68 0.12
260 18 0.03
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.34
Consensus pattern (257 bp):
GGTAAGAAACTTTGAAAATCACTTTCTTACTTTTCAAAAATTTCATTTTCTGAAAATTTAAATGA
GAAACTTTGAAAATCGTTTTCTCATTTTTCACAACATCATATGAAAACATCCTGTTCGAAGGTCT
TATAGATGGCCCGAAAGACTTATCATCTTACTCGAAAGACTGACAGATGACCTGAAGGATTTAAT
CATCATGCTCGAAAGACTTACTGATGGCCGAAGGACTTACCAATTTTGAAAATAGTCTACTA
Found at i:2046441 original size:42 final size:41
Alignment explanation
Indices: 2046368--2046469 Score: 116
Period size: 42 Copynumber: 2.5 Consensus size: 41
2046358 AAGGTCTTAT
* *
2046368 AGATGGCCCGAAAGACTTATCATCTTGCTCGAAAGACTGAC
1 AGATGACCCGAAAGACTTATCATCATGCTCGAAAGACTGAC
* * *
2046409 AGATGACCCGAATGATTTAATCATCATGCTCGAAAGACTTAC
1 AGATGACCCGAAAGACTT-ATCATCATGCTCGAAAGACTGAC
* *
2046451 TGATTG-CCTGAAAGACTTA
1 AGA-TGACCCGAAAGACTTA
2046470 CCAATTATGT
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
41 16 0.32
42 32 0.64
43 2 0.04
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (41 bp):
AGATGACCCGAAAGACTTATCATCATGCTCGAAAGACTGAC
Found at i:2057599 original size:15 final size:17
Alignment explanation
Indices: 2057569--2057606 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
2057559 GTTTCCAAAA
2057569 TTGGATTGTACAACA-T
1 TTGGATTGTACAACATT
*
2057585 TTGGATTG-GCAACATT
1 TTGGATTGTACAACATT
2057601 TTGGAT
1 TTGGAT
2057607 CCTCTAAGGC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 5 0.25
16 15 0.75
ACGTcount: A:0.26, C:0.11, G:0.24, T:0.39
Consensus pattern (17 bp):
TTGGATTGTACAACATT
Found at i:2076959 original size:26 final size:26
Alignment explanation
Indices: 2076923--2076985 Score: 117
Period size: 26 Copynumber: 2.4 Consensus size: 26
2076913 ACTGAAGTGC
2076923 TAATACACATAAGGTCGTGCCCACCA
1 TAATACACATAAGGTCGTGCCCACCA
*
2076949 TAATACACATAAGTTCGTGCCCACCA
1 TAATACACATAAGGTCGTGCCCACCA
2076975 TAATACACATA
1 TAATACACATA
2076986 TGGTTGTGAC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.38, C:0.29, G:0.11, T:0.22
Consensus pattern (26 bp):
TAATACACATAAGGTCGTGCCCACCA
Found at i:2076998 original size:26 final size:25
Alignment explanation
Indices: 2076923--2076998 Score: 98
Period size: 26 Copynumber: 2.9 Consensus size: 25
2076913 ACTGAAGTGC
*
2076923 TAATACACATAAGGTCGTGCCCACCA
1 TAATACACAT-AGGTTGTGCCCACCA
*
2076949 TAATACACATAAGTTCGTGCCCACCA
1 TAATACACATAGGTT-GTGCCCACCA
*
2076975 TAATACACATATGGTTGTGACCAC
1 TAATACACATA-GGTTGTGCCCAC
2076999 TTTATGCACT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
25 3 0.07
26 38 0.86
27 3 0.07
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (25 bp):
TAATACACATAGGTTGTGCCCACCA
Found at i:2077247 original size:22 final size:22
Alignment explanation
Indices: 2077215--2077256 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
2077205 CAAAGTATCA
* *
2077215 TTCATGTTAAATATCATATGTG
1 TTCATGATAAACATCATATGTG
2077237 TTCATGATAAACATCATATG
1 TTCATGATAAACATCATATG
2077257 AAACGATCAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (22 bp):
TTCATGATAAACATCATATGTG
Found at i:2079638 original size:13 final size:13
Alignment explanation
Indices: 2079630--2079674 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 13
2079620 ACTTCTCTTT
2079630 TTCTTTTCTTTTC
1 TTCTTTTCTTTTC
2079643 TTC-TTT-TTTTC
1 TTCTTTTCTTTTC
2079654 TT-TTTGTCTTTTC
1 TTCTTT-TCTTTTC
2079667 TTTCTTTT
1 -TTCTTTT
2079675 TGCACTCCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 9
0.75 0.00 0.25
Matches are distributed among these distances:
11 9 0.33
12 4 0.15
13 8 0.30
14 3 0.11
15 3 0.11
ACGTcount: A:0.00, C:0.18, G:0.02, T:0.80
Consensus pattern (13 bp):
TTCTTTTCTTTTC
Found at i:2079651 original size:21 final size:23
Alignment explanation
Indices: 2079621--2079675 Score: 69
Period size: 21 Copynumber: 2.4 Consensus size: 23
2079611 TCTTTTTGAA
*
2079621 CTTCTCTTTTTC-TTT-TCTTTT
1 CTTCTTTTTTTCTTTTGTCTTTT
2079642 CTTCTTTTTTTCTTTTTGTCTTTT
1 CTTCTTTTTTTC-TTTTGTCTTTT
2079666 CTTTCTTTTT
1 C-TTCTTTTT
2079676 GCACTCCAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 11 0.38
23 3 0.10
24 7 0.24
25 8 0.28
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.78
Consensus pattern (23 bp):
CTTCTTTTTTTCTTTTGTCTTTT
Found at i:2079670 original size:17 final size:17
Alignment explanation
Indices: 2079628--2079676 Score: 66
Period size: 16 Copynumber: 2.9 Consensus size: 17
2079618 GAACTTCTCT
2079628 TTTTCTTTTCTTTTCT-TC
1 TTTTC-TTTCTTTT-TGTC
2079646 TTTT-TTTCTTTTTGTC
1 TTTTCTTTCTTTTTGTC
2079662 TTTTCTTTCTTTTTG
1 TTTTCTTTCTTTTTG
2079677 CACTCCAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
15 1 0.03
16 14 0.48
17 10 0.34
18 4 0.14
ACGTcount: A:0.00, C:0.16, G:0.04, T:0.80
Consensus pattern (17 bp):
TTTTCTTTCTTTTTGTC
Found at i:2082376 original size:5 final size:5
Alignment explanation
Indices: 2082368--2082422 Score: 53
Period size: 5 Copynumber: 10.8 Consensus size: 5
2082358 GAACTTCACT
2082368 TTTTC TTTTC TTTTC TTCTT- TTCTTC TTTTC TTCTT- TTTGTC TTTTC
1 TTTTC TTTTC TTTTC TT-TTC TT-TTC TTTTC TT-TTC TTT-TC TTTTC
2082415 -TTTC TTTT
1 TTTTC TTTT
2082423 TGCACTCCAA
Statistics
Matches: 44, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
4 5 0.11
5 30 0.68
6 9 0.20
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.78
Consensus pattern (5 bp):
TTTTC
Found at i:2082388 original size:8 final size:8
Alignment explanation
Indices: 2082375--2082422 Score: 71
Period size: 8 Copynumber: 5.9 Consensus size: 8
2082365 ACTTTTTCTT
2082375 TTCTTTTC
1 TTCTTTTC
2082383 TTCTTTTC
1 TTCTTTTC
2082391 TTCTTTTC
1 TTCTTTTC
2082399 TTCTTTT-
1 TTCTTTTC
2082406 TGTCTTTTC
1 T-TCTTTTC
2082415 TTTCTTTT
1 -TTCTTTT
2082423 TGCACTCCAA
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
7 1 0.03
8 29 0.78
9 6 0.16
10 1 0.03
ACGTcount: A:0.00, C:0.21, G:0.02, T:0.77
Consensus pattern (8 bp):
TTCTTTTC
Found at i:2083866 original size:16 final size:16
Alignment explanation
Indices: 2083845--2083876 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
2083835 TCTTCCACCA
2083845 ATGTTAGAATGCAAAT
1 ATGTTAGAATGCAAAT
2083861 ATGTTAGAATGCAAAT
1 ATGTTAGAATGCAAAT
2083877 GAGCTAACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.19, T:0.31
Consensus pattern (16 bp):
ATGTTAGAATGCAAAT
Found at i:2085997 original size:5 final size:5
Alignment explanation
Indices: 2085989--2086043 Score: 53
Period size: 5 Copynumber: 10.8 Consensus size: 5
2085979 GAACTTCACT
2085989 TTTTC TTTTC TTTTC TTCTT- TTCTTC TTTTC TTCTT- TTTGTC TTTTC
1 TTTTC TTTTC TTTTC TT-TTC TT-TTC TTTTC TT-TTC TTT-TC TTTTC
2086036 -TTTC TTTT
1 TTTTC TTTT
2086044 TGCACTCCAA
Statistics
Matches: 44, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
4 5 0.11
5 30 0.68
6 9 0.20
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.78
Consensus pattern (5 bp):
TTTTC
Found at i:2086009 original size:8 final size:8
Alignment explanation
Indices: 2085996--2086043 Score: 71
Period size: 8 Copynumber: 5.9 Consensus size: 8
2085986 ACTTTTTCTT
2085996 TTCTTTTC
1 TTCTTTTC
2086004 TTCTTTTC
1 TTCTTTTC
2086012 TTCTTTTC
1 TTCTTTTC
2086020 TTCTTTT-
1 TTCTTTTC
2086027 TGTCTTTTC
1 T-TCTTTTC
2086036 TTTCTTTT
1 -TTCTTTT
2086044 TGCACTCCAA
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
7 1 0.03
8 29 0.78
9 6 0.16
10 1 0.03
ACGTcount: A:0.00, C:0.21, G:0.02, T:0.77
Consensus pattern (8 bp):
TTCTTTTC
Found at i:2087487 original size:16 final size:16
Alignment explanation
Indices: 2087466--2087497 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
2087456 TCTTCCACCA
2087466 ATGTTAGAATGCAAAT
1 ATGTTAGAATGCAAAT
2087482 ATGTTAGAATGCAAAT
1 ATGTTAGAATGCAAAT
2087498 GAGCTAACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.19, T:0.31
Consensus pattern (16 bp):
ATGTTAGAATGCAAAT
Found at i:2087781 original size:6 final size:6
Alignment explanation
Indices: 2087770--2088439 Score: 1277
Period size: 6 Copynumber: 113.2 Consensus size: 6
2087760 GATCACATCA
2087770 ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT
1 ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT
2087818 ATAAGT ATAAGT ATAAGT ATAAG- -TAAGT ATAAGT ATAAGT ATAAGT
1 ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT
2087864 ATAAGT ATAAGT ATAAGT AT-AGT ATAAGT ATAAGT ATAAGT ATAAGT
1 ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT
2087911 ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT
1 ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT
2087959 ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT
1 ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT
2088007 ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT ATAAG-
1 ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT
2088054 -TAAGT ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT
1 ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT
2088101 ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT
1 ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT
2088149 ATAAGT ATAAGT ATAAG- -TAAGT ATAAGT ATAAGT ATAAGT ATAAGT
1 ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT
2088195 ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT ATAAG-
1 ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT
2088242 -TAAGT ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT
1 ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT
2088289 ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT
1 ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT
2088337 ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT
1 ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT
2088385 ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT
1 ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT ATAAGT
2088433 ATAAGT A
1 ATAAGT A
2088440 AATGACCATA
Statistics
Matches: 655, Mismatches: 0, Indels: 18
0.97 0.00 0.03
Matches are distributed among these distances:
4 16 0.02
5 5 0.01
6 634 0.97
ACGTcount: A:0.50, C:0.00, G:0.17, T:0.33
Consensus pattern (6 bp):
ATAAGT
Found at i:2088704 original size:26 final size:26
Alignment explanation
Indices: 2088664--2088717 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
2088654 ACCGAAATGC
* *
2088664 TAATACACATGAGGTCGTGCCCACCA
1 TAATAAACATAAGGTCGTGCCCACCA
*
2088690 TAATAAACATAAGGTTGTGCCCACCA
1 TAATAAACATAAGGTCGTGCCCACCA
2088716 TA
1 TA
2088718 TGCAGTTGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.35, C:0.26, G:0.17, T:0.22
Consensus pattern (26 bp):
TAATAAACATAAGGTCGTGCCCACCA
Found at i:2091324 original size:46 final size:47
Alignment explanation
Indices: 2091255--2091385 Score: 169
Period size: 46 Copynumber: 2.9 Consensus size: 47
2091245 ACTGTTATAT
* * * *
2091255 ATTTTCATTTGTGGCA-TCATTTCATGCTGATTATGCATCGTCATGC
1 ATTTTCATTTATGGCATTCATTTCATGCCGATGATGCACCGTCATGC
*
2091301 ATTTTCATTTATGGCATTC-TTTCATGCCGATGATGCACCGTTATGC
1 ATTTTCATTTATGGCATTCATTTCATGCCGATGATGCACCGTCATGC
* **
2091347 ATTTTCATTTATGGCA-TCATTTTATGCCGAAAATGCACC
1 ATTTTCATTTATGGCATTCATTTCATGCCGATGATGCACC
2091386 ATTTGTCATC
Statistics
Matches: 75, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
45 2 0.03
46 71 0.95
47 2 0.03
ACGTcount: A:0.22, C:0.21, G:0.16, T:0.41
Consensus pattern (47 bp):
ATTTTCATTTATGGCATTCATTTCATGCCGATGATGCACCGTCATGC
Found at i:2091432 original size:49 final size:49
Alignment explanation
Indices: 2091376--2091630 Score: 321
Period size: 49 Copynumber: 5.2 Consensus size: 49
2091366 TTTTATGCCG
* *
2091376 AAAATGCACCATTTGTCATCTAACTTGCATTAGTGGCACATTTCTAACA
1 AAAATGCACCATTTGTCATCTAACTTGCATTAGTGGCACCTTTCTACCA
*** * * * *
2091425 AAAATGCATTGTTAGGCATTTAACTTGCATTAGTGGCACCTTTCTGCCA
1 AAAATGCACCATTTGTCATCTAACTTGCATTAGTGGCACCTTTCTACCA
* * *
2091474 AAAATGCACCATTTGTCATCTAACTTGCATTAGTGACACATTTGTACCA
1 AAAATGCACCATTTGTCATCTAACTTGCATTAGTGGCACCTTTCTACCA
* * * * *
2091523 AAAATGCACCATTAGGCATTTAACTTGCATTAGTGGCACCTTTATGCCA
1 AAAATGCACCATTTGTCATCTAACTTGCATTAGTGGCACCTTTCTACCA
* * * *
2091572 AAAGTACACCATTTTTCATCTAACTTGTATTAGTGGCACCTTTCTACCA
1 AAAATGCACCATTTGTCATCTAACTTGCATTAGTGGCACCTTTCTACCA
2091621 AAAATGCACC
1 AAAATGCACC
2091631 GTTAGGCATT
Statistics
Matches: 169, Mismatches: 37, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
49 169 1.00
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.33
Consensus pattern (49 bp):
AAAATGCACCATTTGTCATCTAACTTGCATTAGTGGCACCTTTCTACCA
Found at i:2091485 original size:98 final size:98
Alignment explanation
Indices: 2091367--2091646 Score: 443
Period size: 98 Copynumber: 2.9 Consensus size: 98
2091357 ATGGCATCAT
* *
2091367 TTTATGCCGAAAATGCACCATTTGTCATCTAACTTGCATTAGTGGCACATTTCTAACAAAAATGC
1 TTTATGCCAAAAATGCACCATTTGTCATCTAACTTGCATTAGTGGCACATTTCTACCAAAAATGC
**
2091432 ATTGTTAGGCATTTAACTTGCATTAGTGGCACC
66 ACCGTTAGGCATTTAACTTGCATTAGTGGCACC
* * *
2091465 TTTCTGCCAAAAATGCACCATTTGTCATCTAACTTGCATTAGTGACACATTTGTACCAAAAATGC
1 TTTATGCCAAAAATGCACCATTTGTCATCTAACTTGCATTAGTGGCACATTTCTACCAAAAATGC
*
2091530 ACCATTAGGCATTTAACTTGCATTAGTGGCACC
66 ACCGTTAGGCATTTAACTTGCATTAGTGGCACC
* * * * *
2091563 TTTATGCCAAAAGTACACCATTTTTCATCTAACTTGTATTAGTGGCACCTTTCTACCAAAAATGC
1 TTTATGCCAAAAATGCACCATTTGTCATCTAACTTGCATTAGTGGCACATTTCTACCAAAAATGC
2091628 ACCGTTAGGCATTTAACTT
66 ACCGTTAGGCATTTAACTT
2091647 TCTTTTTTAG
Statistics
Matches: 165, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
98 165 1.00
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.34
Consensus pattern (98 bp):
TTTATGCCAAAAATGCACCATTTGTCATCTAACTTGCATTAGTGGCACATTTCTACCAAAAATGC
ACCGTTAGGCATTTAACTTGCATTAGTGGCACC
Found at i:2096780 original size:23 final size:23
Alignment explanation
Indices: 2096750--2096800 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
2096740 TATGTAAAAC
*
2096750 ATATACTAGTAAAGATATTTAAA
1 ATATACTAATAAAGATATTTAAA
* * *
2096773 ATATACTAATTAATATTTTTAAA
1 ATATACTAATAAAGATATTTAAA
2096796 ATATA
1 ATATA
2096801 ATATAACACT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.41
Consensus pattern (23 bp):
ATATACTAATAAAGATATTTAAA
Found at i:2096923 original size:18 final size:20
Alignment explanation
Indices: 2096896--2096933 Score: 53
Period size: 18 Copynumber: 2.0 Consensus size: 20
2096886 TAATAAAATT
2096896 ATAAAAAAA-TA-TTTAATA
1 ATAAAAAAATTATTTTAATA
*
2096914 ATAAATAAATTATTTTAATA
1 ATAAAAAAATTATTTTAATA
2096934 TTTTAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 8 0.47
19 2 0.12
20 7 0.41
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
ATAAAAAAATTATTTTAATA
Found at i:2097115 original size:14 final size:15
Alignment explanation
Indices: 2097095--2097181 Score: 68
Period size: 15 Copynumber: 5.9 Consensus size: 15
2097085 TCCAGAAATG
2097095 TAATTCATTTTCCAA
1 TAATTCATTTTCCAA
**
2097110 -AATTCAAATTCCAA
1 TAATTCATTTTCCAA
* *
2097124 TAATTCATTTTTCAG
1 TAATTCATTTTCCAA
** * *
2097139 TAATTCAAATTACAG
1 TAATTCATTTTCCAA
** *
2097154 TAATTCAAATTCCAG
1 TAATTCATTTTCCAA
2097169 TAATTCATTTTCC
1 TAATTCATTTTCC
2097182 GGAAAACCAA
Statistics
Matches: 59, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
14 12 0.20
15 47 0.80
ACGTcount: A:0.37, C:0.18, G:0.03, T:0.41
Consensus pattern (15 bp):
TAATTCATTTTCCAA
Found at i:2097144 original size:30 final size:30
Alignment explanation
Indices: 2097095--2097175 Score: 101
Period size: 30 Copynumber: 2.7 Consensus size: 30
2097085 TCCAGAAATG
* *
2097095 TAATTCATTTTCCA-AAATTCAAATTCCAA
1 TAATTCATTTTCCAGTAATTCAAATTACAA
* *
2097124 TAATTCATTTTTCAGTAATTCAAATTACAG
1 TAATTCATTTTCCAGTAATTCAAATTACAA
**
2097154 TAATTCAAATTCCAGTAATTCA
1 TAATTCATTTTCCAGTAATTCA
2097176 TTTTCCGGAA
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
29 13 0.30
30 31 0.70
ACGTcount: A:0.40, C:0.17, G:0.04, T:0.40
Consensus pattern (30 bp):
TAATTCATTTTCCAGTAATTCAAATTACAA
Found at i:2097181 original size:15 final size:15
Alignment explanation
Indices: 2097110--2097175 Score: 87
Period size: 15 Copynumber: 4.4 Consensus size: 15
2097100 CATTTTCCAA
*
2097110 AATTCAAATTCCAAT
1 AATTCAAATTCCAGT
** *
2097125 AATTCATTTTTCAGT
1 AATTCAAATTCCAGT
*
2097140 AATTCAAATTACAGT
1 AATTCAAATTCCAGT
2097155 AATTCAAATTCCAGT
1 AATTCAAATTCCAGT
2097170 AATTCA
1 AATTCA
2097176 TTTTCCGGAA
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 43 1.00
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.38
Consensus pattern (15 bp):
AATTCAAATTCCAGT
Found at i:2098478 original size:46 final size:46
Alignment explanation
Indices: 2098425--2098561 Score: 168
Period size: 46 Copynumber: 3.0 Consensus size: 46
2098415 GTACACCGTT
* * *
2098425 ATGTATTTTCAATTGTGGCATCCTTTCATGAT-GATTATGCACCATC
1 ATGTATTTTCATTTATGGCATCCTTTCATG-TCGATAATGCACCATC
** *
2098471 ATGTATTTTCATTTATGGCATCCTTTCATGTCGATAATGCACTGTT
1 ATGTATTTTCATTTATGGCATCCTTTCATGTCGATAATGCACCATC
* * * *
2098517 ATGCATTTTCATTTATGGCATCCTTTAATGCCGAAAATGCACCAT
1 ATGTATTTTCATTTATGGCATCCTTTCATGTCGATAATGCACCAT
2098562 TTGTCATTTA
Statistics
Matches: 78, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
45 1 0.01
46 77 0.99
ACGTcount: A:0.25, C:0.20, G:0.15, T:0.41
Consensus pattern (46 bp):
ATGTATTTTCATTTATGGCATCCTTTCATGTCGATAATGCACCATC
Found at i:2098604 original size:49 final size:49
Alignment explanation
Indices: 2098550--2099021 Score: 514
Period size: 49 Copynumber: 9.6 Consensus size: 49
2098540 TTTAATGCCG
* *
2098550 AAAATGCACCATTTGTCATTTAACTTGCATTAATGGCACCTTTCCACCA
1 AAAATGCACCATTTGTCATTTAACTTGCATTAGTGGCACCTTTCTACCA
* * * * * *
2098599 AAAATGCATCGTTAGGCATTTAACTTGCATTAGTGGCACCTTTTTGCCA
1 AAAATGCACCATTTGTCATTTAACTTGCATTAGTGGCACCTTTCTACCA
* * * **
2098648 AAAATGCACCATTTGTCATCTAACTTACGTTAGTGGCACCTTTCTATAA
1 AAAATGCACCATTTGTCATTTAACTTGCATTAGTGGCACCTTTCTACCA
* * * *
2098697 AAAATGCACCATTTGTCATCTAACTTGCATTAGTAGCACATTTCTGCCA
1 AAAATGCACCATTTGTCATTTAACTTGCATTAGTGGCACCTTTCTACCA
* * * * *
2098746 AAAATGCACCGTTAGGCATTTAACTTGCATTAGTGGCACCTTTCTGCAA
1 AAAATGCACCATTTGTCATTTAACTTGCATTAGTGGCACCTTTCTACCA
* * * * *
2098795 AAAATGCAGCATTTGTCATATAACTTGCATTAATGACACCTTCCTACCA
1 AAAATGCACCATTTGTCATTTAACTTGCATTAGTGGCACCTTTCTACCA
* * * * * *
2098844 AAAATGCAGCGTTGGACATTTAACTTGCACTAGTGGCACCTTTCTACAA
1 AAAATGCACCATTTGTCATTTAACTTGCATTAGTGGCACCTTTCTACCA
* * *
2098893 AAAATGCACCAATTT-TCATCTAACTTGCATTAGTAGCACCTTTCTACCC
1 AAAATGCACC-ATTTGTCATTTAACTTGCATTAGTGGCACCTTTCTACCA
** * * * *
2098942 AAAATGCACTGTTAGGCATTTAACTTACATTAGTGGTACCTTTCTACCA
1 AAAATGCACCATTTGTCATTTAACTTGCATTAGTGGCACCTTTCTACCA
* * * *
2098991 AAAATGCACCGTTAGGCATTTAACTTTCATT
1 AAAATGCACCATTTGTCATTTAACTTGCATT
2099022 TTAGAGCATT
Statistics
Matches: 349, Mismatches: 72, Indels: 4
0.82 0.17 0.01
Matches are distributed among these distances:
48 2 0.01
49 345 0.99
50 2 0.01
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.33
Consensus pattern (49 bp):
AAAATGCACCATTTGTCATTTAACTTGCATTAGTGGCACCTTTCTACCA
Found at i:2100353 original size:13 final size:13
Alignment explanation
Indices: 2100335--2100381 Score: 58
Period size: 13 Copynumber: 3.6 Consensus size: 13
2100325 GTCATAAATC
2100335 TATGACGCACATT
1 TATGACGCACATT
* *
2100348 TATGACACGCATT
1 TATGACGCACATT
* *
2100361 TATAACTCACATT
1 TATGACGCACATT
2100374 TATGACGC
1 TATGACGC
2100382 GAATTGAGCG
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.32, C:0.23, G:0.13, T:0.32
Consensus pattern (13 bp):
TATGACGCACATT
Found at i:2105306 original size:14 final size:14
Alignment explanation
Indices: 2105287--2105320 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
2105277 AATTGGTCTT
2105287 AATCATAATTTCTA
1 AATCATAATTTCTA
2105301 AATCATAATTTCTA
1 AATCATAATTTCTA
2105315 AATCAT
1 AATCAT
2105321 TTTCTTATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (14 bp):
AATCATAATTTCTA
Found at i:2114563 original size:17 final size:17
Alignment explanation
Indices: 2114541--2114581 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
2114531 TTTTCTTAGT
2114541 AATTCAATCATTTCTGA
1 AATTCAATCATTTCTGA
*
2114558 AATTCAGTCATTTCTGA
1 AATTCAATCATTTCTGA
2114575 AATTCAA
1 AATTCAA
2114582 ATACATACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.37, C:0.17, G:0.07, T:0.39
Consensus pattern (17 bp):
AATTCAATCATTTCTGA
Found at i:2144202 original size:49 final size:49
Alignment explanation
Indices: 2144130--2144227 Score: 187
Period size: 49 Copynumber: 2.0 Consensus size: 49
2144120 ATTTTCTCAC
*
2144130 ATTGATTAATGGAAACAAAAGTTTCCACTCCAACTCTCATAACTAAATT
1 ATTGATTAATGGAAACAAAAGTTTCCACTCCAACTCTCAGAACTAAATT
2144179 ATTGATTAATGGAAACAAAAGTTTCCACTCCAACTCTCAGAACTAAATT
1 ATTGATTAATGGAAACAAAAGTTTCCACTCCAACTCTCAGAACTAAATT
2144228 TGCAGCTTCA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (49 bp):
ATTGATTAATGGAAACAAAAGTTTCCACTCCAACTCTCAGAACTAAATT
Found at i:2147558 original size:112 final size:112
Alignment explanation
Indices: 2147362--2147597 Score: 348
Period size: 112 Copynumber: 2.1 Consensus size: 112
2147352 GTTATAGGTG
* ** * * *
2147362 CATTTCAACATACTTTGTGTATGATAGTATCGATCGATTTTGTTTAACGTATAACGGTGCATTTT
1 CATTTCGACATACTTCATGTATGAAAGTATCGATCGATTTTGCTTAACGCATAACGGTGCATTTT
* *
2147427 CGGCATAAAATGTGCCACCCATGGTATTCATAATGA-GGTGAATTAC
66 CAGCATAAAAGGTGCCACCCATGGTATTCATAATGAGGGTGAATTAC
*
2147473 CATTTCGACATACTTCATGTATGAAAGTTATCGATCGATTTTGCTTAATGCATAACGGTGCATTT
1 CATTTCGACATACTTCATGTATGAAAG-TATCGATCGATTTTGCTTAACGCATAACGGTGCATTT
*
2147538 TCAGCATAAAAGGTGCCACCCATTGTATTCATAATGAGGTGGTGAATTAC
65 TCAGCATAAAAGGTGCCACCCATGGTATTCATAATGA-G-GGTGAATTAC
2147588 CATTTCGACA
1 CATTTCGACA
2147598 CTTCGGTGCA
Statistics
Matches: 111, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
111 23 0.21
112 68 0.61
115 20 0.18
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (112 bp):
CATTTCGACATACTTCATGTATGAAAGTATCGATCGATTTTGCTTAACGCATAACGGTGCATTTT
CAGCATAAAAGGTGCCACCCATGGTATTCATAATGAGGGTGAATTAC
Found at i:2153870 original size:14 final size:14
Alignment explanation
Indices: 2153853--2153922 Score: 56
Period size: 13 Copynumber: 5.2 Consensus size: 14
2153843 TCCCGAGTCA
2153853 ACCCGTTAACTTTG
1 ACCCGTTAACTTTG
*
2153867 ACCCATTAACTTTG
1 ACCCGTTAACTTTG
* *
2153881 A-CCATTGACTTTG
1 ACCCGTTAACTTTG
* *
2153894 A-CTGTTTACTTTG
1 ACCCGTTAACTTTG
* *
2153907 -GCCGTTGACTTTG
1 ACCCGTTAACTTTG
2153920 ACC
1 ACC
2153923 AAAAAGTCAA
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
13 31 0.67
14 15 0.33
ACGTcount: A:0.20, C:0.26, G:0.16, T:0.39
Consensus pattern (14 bp):
ACCCGTTAACTTTG
Found at i:2153891 original size:13 final size:13
Alignment explanation
Indices: 2153861--2153923 Score: 63
Period size: 13 Copynumber: 4.8 Consensus size: 13
2153851 CAACCCGTTA
*
2153861 ACTTTGACCCATTA
1 ACTTTGA-CCATTG
2153875 ACTTTGACCATTG
1 ACTTTGACCATTG
** *
2153888 ACTTTGACTGTTT
1 ACTTTGACCATTG
* *
2153901 ACTTTGGCCGTTG
1 ACTTTGACCATTG
2153914 ACTTTGACCA
1 ACTTTGACCA
2153924 AAAAGTCAAA
Statistics
Matches: 40, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
13 33 0.82
14 7 0.17
ACGTcount: A:0.21, C:0.24, G:0.16, T:0.40
Consensus pattern (13 bp):
ACTTTGACCATTG
Found at i:2157085 original size:18 final size:19
Alignment explanation
Indices: 2157047--2157093 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
2157037 CTAATTAAAA
* *
2157047 AAACTTAACCTAAAAACCT
1 AAACTAAACTTAAAAACCT
2157066 AAACTAAACTTAAAAA-CT
1 AAACTAAACTTAAAAACCT
*
2157084 AAACAAAACT
1 AAACTAAACT
2157094 AAGCTCTCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 11 0.44
19 14 0.56
ACGTcount: A:0.60, C:0.21, G:0.00, T:0.19
Consensus pattern (19 bp):
AAACTAAACTTAAAAACCT
Found at i:2158262 original size:37 final size:37
Alignment explanation
Indices: 2158211--2158282 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
2158201 GTTTCGGGGA
* * *
2158211 AAACTATCTTAAGTGAGACT-AAATTTTGTTTCAAGAT
1 AAACAATCTCAAGTGAGA-TAAAATTTGGTTTCAAGAT
2158248 AAACAATCTCAAGTGAGATAAAATTTGGTTTCAAG
1 AAACAATCTCAAGTGAGATAAAATTTGGTTTCAAG
2158283 GGAAACTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
36 1 0.03
37 30 0.97
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.33
Consensus pattern (37 bp):
AAACAATCTCAAGTGAGATAAAATTTGGTTTCAAGAT
Found at i:2158355 original size:67 final size:65
Alignment explanation
Indices: 2158254--2158488 Score: 153
Period size: 67 Copynumber: 3.6 Consensus size: 65
2158244 AGATAAACAA
* * * *
2158254 TCTCAAGTGAGATAAAATTTGGTTTCAAGGGAAACTAAATTTCAGG-TTTGCATTTCAAGTGAAA
1 TCTCGAGTGAGACAAAATTTGGTTTCAAGAGAAAC-AAATTT-AGGTTTTG-ATTTCAAGGGAAA
2158318 -TT
63 GTT
* * * * *
2158320 ATCTTGAGTGAGACAAAA-TTGTGTTTCGAGAGAAACAACTTTTGGTTTTGGTTTCAAGGGAAAG
1 -TCTCGAGTGAGACAAAATTTG-GTTTCAAGAGAAACAAATTTAGGTTTTGATTTCAAGGGAAAG
2158384 TT
64 TT
* ** * * * *
2158386 TCTCGAGTGAGACAAACCTTT-GTTTTGAGAAAAAC-AATCTCAAAGTTTT-ATGTTTCAAGAGA
1 TCTCGAGTGAGACAAA-ATTTGGTTTCAAGAGAAACAAAT-T-TAGGTTTTGA--TTTCAAGGGA
2158448 AA-TT
61 AAGTT
* *
2158452 GTCTCAAGCGAGACAAAATTT-GTTTCAAGAGAAACAA
1 -TCTCGAGTGAGACAAAATTTGGTTTCAAGAGAAACAA
2158489 TCTCAAAGGT
Statistics
Matches: 132, Mismatches: 25, Indels: 22
0.74 0.14 0.12
Matches are distributed among these distances:
64 2 0.02
65 41 0.31
66 35 0.27
67 54 0.41
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.32
Consensus pattern (65 bp):
TCTCGAGTGAGACAAAATTTGGTTTCAAGAGAAACAAATTTAGGTTTTGATTTCAAGGGAAAGTT
Found at i:2158399 original size:65 final size:66
Alignment explanation
Indices: 2158306--2158496 Score: 199
Period size: 65 Copynumber: 2.9 Consensus size: 66
2158296 CAGGTTTGCA
* * ****
2158306 TTTCAAGTGAAATTATCTTGAGTGAGACAAAATTGTGTTTCGAGAGAAACAA-CTTTTGGTTTT-
1 TTTCAAGAGAAATTATCTCGAGTGAGACAAAATT-TGTTTCGAGAGAAACAATCTCAAAGTTTTA
2158369 GG
65 GG
* * * *
2158371 TTTCAAGGGAAAGTT-TCTCGAGTGAGACAAACCTTTGTTTTGAGAAAAACAATCTCAAAGTTTT
1 TTTCAAGAGAAA-TTATCTCGAGTGAGACAAA-ATTTGTTTCGAGAGAAACAATCTCAAAGTTTT
*
2158435 ATG
64 AGG
* * * *
2158438 TTTCAAGAGAAATTGTCTCAAGCGAGACAAAATTTGTTTCAAGAGAAACAATCTCAAAG
1 TTTCAAGAGAAATTATCTCGAGTGAGACAAAATTTGTTTCGAGAGAAACAATCTCAAAG
2158497 GTTACAGACA
Statistics
Matches: 104, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
65 41 0.39
66 37 0.36
67 26 0.25
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.32
Consensus pattern (66 bp):
TTTCAAGAGAAATTATCTCGAGTGAGACAAAATTTGTTTCGAGAGAAACAATCTCAAAGTTTTAG
G
Found at i:2159376 original size:81 final size:81
Alignment explanation
Indices: 2159260--2159916 Score: 870
Period size: 81 Copynumber: 8.1 Consensus size: 81
2159250 AAGCATTTAG
* * * * * * *
2159260 TCTTTTACTCAAAGGTATATAGCCTTTCATCTAACTTGCATGATTGACACATTCCTGTCAACTGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
*
2159325 ACAGCTAGGCCGTTAA
66 ACAGCTAGGCCATTAA
* * * * * * * * *
2159341 TATTTTACTTAAAGGCATTTAGCCTTTCATCTAACTGGCTTATTTGACACATTTATGTCGAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
2159406 ACAGCTAGGCCATTAA
66 ACAGCTAGGCCATTAA
* * *
2159422 TCGTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTATG-CAAAATG
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTC-AAATG
2159486 CACAGCTAGGCCATTAA
65 CACAGCTAGGCCATTAA
* *
2159503 TCTTTTACTCAAAAGTATTTAACCTTTCATCTAATTGGCATAATTGACACCTTTCT-TCCAAATG
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGT-CAAATG
*
2159567 CACAGCTAGACCATTAA
65 CACAGCTAGGCCATTAA
* *
2159584 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAACTGACACCTTTCTGCCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
2159649 ACAGCTAGGCCATTAA
66 ACAGCTAGGCCATTAA
*
2159665 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACC-TTCTTGTCAAATA
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTC-TGTCAAATG
*
2159729 CACAACTAGGCCATTAA
65 CACAGCTAGGCCATTAA
* * * * *
2159746 TATTTTACTCAAATGTATTTAACCTTTCATCTAACTGGCATGATTGACATCTTTCTGCCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
* * *
2159811 ATAGCTAGGCTAATAA
66 ACAGCTAGGCCATTAA
** * * * *
2159827 TCCATTACTCAAAGGTATTTAACCTTTCATCTAACTTGCATAATTGACACCTTCCTATTAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
* *
2159892 ACAACTAGGCCATAAA
66 ACAGCTAGGCCATTAA
*
2159908 TCTATTACT
1 TCTTTTACT
2159917 TTGGAATAGT
Statistics
Matches: 507, Mismatches: 63, Indels: 12
0.87 0.11 0.02
Matches are distributed among these distances:
80 4 0.01
81 499 0.98
82 4 0.01
ACGTcount: A:0.31, C:0.23, G:0.12, T:0.35
Consensus pattern (81 bp):
TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
ACAGCTAGGCCATTAA
Found at i:2160109 original size:55 final size:56
Alignment explanation
Indices: 2160069--2160283 Score: 353
Period size: 56 Copynumber: 3.9 Consensus size: 56
2160059 ACCAATAATG
* *
2160069 AAATTCATAAACTTATTATGAATTTATTA-TTTTTGCACACAAAGTGCCCATATGG
1 AAATTCATAAACTTATTATGAATTTCTTAGTTTTTGCACACAAAGTGCCCATATGA
2160124 AAATTCATAAACTTATTATGAATTTCTTAGTTTTTGCACACAAAGTGCCCATATGA
1 AAATTCATAAACTTATTATGAATTTCTTAGTTTTTGCACACAAAGTGCCCATATGA
* *
2160180 AAATTCATAAACTTATTATGAATTTCTTAGCTTTTGCACACAAAGTGCCCATACGA
1 AAATTCATAAACTTATTATGAATTTCTTAGTTTTTGCACACAAAGTGCCCATATGA
** *
2160236 AAATTCATAAACTTATTATGAATTTCTTA-ACTTTGCACACATAGTGCC
1 AAATTCATAAACTTATTATGAATTTCTTAGTTTTTGCACACAAAGTGCC
2160284 ATTTGGTAAT
Statistics
Matches: 152, Mismatches: 7, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
55 44 0.29
56 108 0.71
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.37
Consensus pattern (56 bp):
AAATTCATAAACTTATTATGAATTTCTTAGTTTTTGCACACAAAGTGCCCATATGA
Found at i:2160647 original size:22 final size:21
Alignment explanation
Indices: 2160617--2160660 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
2160607 TCGATACCCC
*
2160617 TACCATGGTATCGATACTACTA
1 TACCATGGTACCGATACT-CTA
*
2160639 TACCTTGGTACCGATACTCTA
1 TACCATGGTACCGATACTCTA
2160660 T
1 T
2160661 TACGGTATAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (21 bp):
TACCATGGTACCGATACTCTA
Found at i:2165114 original size:13 final size:13
Alignment explanation
Indices: 2165096--2165160 Score: 85
Period size: 13 Copynumber: 5.0 Consensus size: 13
2165086 AATGACGCTC
2165096 AATGCGCGTCATA
1 AATGCGCGTCATA
2165109 AATGCGCGTCATA
1 AATGCGCGTCATA
* *
2165122 AATGTGTGTCATA
1 AATGCGCGTCATA
* *
2165135 AATACGTGTCATA
1 AATGCGCGTCATA
*
2165148 AATGCACGTCATA
1 AATGCGCGTCATA
2165161 GATTTATGAC
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 45 1.00
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (13 bp):
AATGCGCGTCATA
Found at i:2167364 original size:2 final size:2
Alignment explanation
Indices: 2167359--2167419 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
2167349 TATATATATA
2167359 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
2167401 TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG T
2167420 TTTGACATTA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:2169963 original size:81 final size:80
Alignment explanation
Indices: 2169869--2170441 Score: 679
Period size: 81 Copynumber: 7.1 Consensus size: 80
2169859 AAGCATTTAG
* * ** * * * * * *
2169869 TCTTTTACTCAAAGGCATATAGTCGTTCATCTAACTTGCATGATTGACACCTTCATGTCAACTGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACTTTC-TGCCAAATGC
*
2169934 CCAGCTAGGCCATTAA
65 ACAGCTAGGCCATTAA
* * * *
2169950 TATTTTACTCAAAGGTATTTATCCTTTCTTCTAACTGGCATAATTGACACATTTCTACCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACAC-TTTCTGCCAAATGC
* *
2170015 ACAGATAAGCCATTAA
65 ACAGCTAGGCCATTAA
* * *
2170031 TATTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGAGACCTTTCTGCAAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACA-CTTTCTGCCAAATGC
*
2170096 ACAGTTAGGCCATTAA
65 ACAGCTAGGCCATTAA
* * * *
2170112 TCTTTTACTCAAAAGTATTTAACCTTTCATCTAACTGGCATAAAATGAAATCTTTCTACCAAATG
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCAT-AATTGACA-CTTTCTGCCAAATG
*
2170177 CACAACTAGGCCATTAA
64 CACAGCTAGGCCATTAA
* *
2170194 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAACTAACACATTTCTGCCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACAC-TTTCTGCCAAATGC
2170259 ACAGCTAGGCCATTAA
65 ACAGCTAGGCCATTAA
* * * *
2170275 TCTTTTACTCAAAGGTATTTAACATTTCATCTAACTAGCAGAACTGACACCTTTCTGCCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACA-CTTTCTGCCAAATGC
* *
2170340 ACAACTAGGCCAGTAA
65 ACAGCTAGGCCATTAA
* * * *
2170356 TCTTTTACTAAAAGGTATTTAACCTTTCA--T--CTGGCATAACTGATACATTCCT-CTCAAATG
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACAC-TTTCTGC-CAAATG
*
2170416 TACAGCTAGGCCATTAA
64 CACAGCTAGGCCATTAA
2170433 TCTTTTACT
1 TCTTTTACT
2170442 TTAGAATAGT
Statistics
Matches: 432, Mismatches: 53, Indels: 18
0.86 0.11 0.04
Matches are distributed among these distances:
76 2 0.00
77 45 0.10
79 1 0.00
80 1 0.00
81 305 0.71
82 78 0.18
ACGTcount: A:0.32, C:0.23, G:0.12, T:0.34
Consensus pattern (80 bp):
TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACTTTCTGCCAAATGCA
CAGCTAGGCCATTAA
Found at i:2170233 original size:244 final size:244
Alignment explanation
Indices: 2169938--2170387 Score: 722
Period size: 244 Copynumber: 1.8 Consensus size: 244
2169928 AACTGCCCAG
* * * *
2169938 CTAGGCCATTAATATTTTACTCAAAGGTATTTATCCTTTCTTCTAACTGGCATAATTGACACATT
1 CTAGGCCATTAATATTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAACTAACACATT
* *
2170003 TCTACCAAATGCACAGATAAGCCATTAATATTTTACTCAAAGGTATTTAACCTTTCATCTAACTG
66 TCTACCAAATGCACAGATAAGCCATTAATATTTTACTCAAAGGTATTTAACATTTCATCTAACTA
* * * ** *
2170068 GCATAATTGAGACCTTTCTGCAAAATGCACAGTTAGGCCATTAATCTTTTACTCAAAA-GTATTT
131 GCAGAACTGACACCTTTCTGCAAAATGCACAACTAGGCCAGTAATCTTTTACT-AAAAGGTATTT
2170132 AACCTTTCATCTAACTGGCATAAAATGAAATCTTTCTACCAAATGCACAA
195 AACCTTTCATCTAACTGGCATAAAATGAAATCTTTCTACCAAATGCACAA
*
2170182 CTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAACTAACACATT
1 CTAGGCCATTAATATTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAACTAACACATT
* * * *
2170247 TCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACATTTCATCTAACTA
66 TCTACCAAATGCACAGATAAGCCATTAATATTTTACTCAAAGGTATTTAACATTTCATCTAACTA
*
2170312 GCAGAACTGACACCTTTCTGCCAAATGCACAACTAGGCCAGTAATCTTTTACTAAAAGGTATTTA
131 GCAGAACTGACACCTTTCTGCAAAATGCACAACTAGGCCAGTAATCTTTTACTAAAAGGTATTTA
2170377 ACCTTTCATCT
196 ACCTTTCATCT
2170388 GGCATAACTG
Statistics
Matches: 187, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
243 4 0.02
244 183 0.98
ACGTcount: A:0.33, C:0.22, G:0.11, T:0.34
Consensus pattern (244 bp):
CTAGGCCATTAATATTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAACTAACACATT
TCTACCAAATGCACAGATAAGCCATTAATATTTTACTCAAAGGTATTTAACATTTCATCTAACTA
GCAGAACTGACACCTTTCTGCAAAATGCACAACTAGGCCAGTAATCTTTTACTAAAAGGTATTTA
ACCTTTCATCTAACTGGCATAAAATGAAATCTTTCTACCAAATGCACAA
Found at i:2170701 original size:56 final size:56
Alignment explanation
Indices: 2170580--2170799 Score: 322
Period size: 56 Copynumber: 4.0 Consensus size: 56
2170570 CACATTACCA
* * * * *
2170580 ATACCGAAATTCATAAACTTGTTATGAATTTATTA-TTTTTGCACACAAAGTACCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGCTTTTGCACACAAAGTGCCC
*
2170635 ATACGAAAATTCATAAACTTATTATGAATTTCTTAGCTTTTGCACACAAAGTGCCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGCTTTTGCACACAAAGTGCCC
2170691 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGCTTTTGCACACAAAGTGCCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGCTTTTGCACACAAAGTGCCC
* * *
2170747 ATA-GGAAAATTCATAAACTTA-TATGAATTTCCTAAC-TTTGCACACATAGTGCC
1 ATACGG-AAATTCATAAACTTATTATGAATTTCTTAGCTTTTGCACACAAAGTGCC
2170800 ATTTGGAAAT
Statistics
Matches: 153, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
54 16 0.10
55 46 0.30
56 91 0.59
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.34
Consensus pattern (56 bp):
ATACGGAAATTCATAAACTTATTATGAATTTCTTAGCTTTTGCACACAAAGTGCCC
Found at i:2170772 original size:111 final size:110
Alignment explanation
Indices: 2170580--2170799 Score: 334
Period size: 111 Copynumber: 2.0 Consensus size: 110
2170570 CACATTACCA
* *
2170580 ATACCGAAATTCATAAACTTGTTATGAATTTATTATTTTTGCACACAAAGTACCCATACGAAAAT
1 ATACCGAAATTCATAAACTTATTATGAATTTATTACTTTTGCACACAAAGTACCCATACGAAAAT
* *
2170645 TCATAAACTTATTATGAATTTCTTAGCTTTTGCACACAAAGTGCCC
66 TCATAAACTTATTATGAATTTCCTAAC-TTTGCACACAAAGTGCCC
* * * *
2170691 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGCTTTTGCACACAAAGTGCCCATAGGAAAA
1 ATACCGAAATTCATAAACTTATTATGAATTTATTA-CTTTTGCACACAAAGTACCCATACGAAAA
*
2170756 TTCATAAACTTA-TATGAATTTCCTAACTTTGCACACATAGTGCC
65 TTCATAAACTTATTATGAATTTCCTAACTTTGCACACAAAGTGCC
2170800 ATTTGGAAAT
Statistics
Matches: 99, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
110 16 0.16
111 45 0.45
112 38 0.38
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.34
Consensus pattern (110 bp):
ATACCGAAATTCATAAACTTATTATGAATTTATTACTTTTGCACACAAAGTACCCATACGAAAAT
TCATAAACTTATTATGAATTTCCTAACTTTGCACACAAAGTGCCC
Found at i:2171164 original size:22 final size:21
Alignment explanation
Indices: 2171134--2171177 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
2171124 TCGATACCCC
2171134 TACCATGGTA-TCGATACTACTA
1 TACCATGGTACT-GATACT-CTA
*
2171156 TACCTTGGTACTGATACTCTA
1 TACCATGGTACTGATACTCTA
2171177 T
1 T
2171178 TACGGTACCA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 4 0.20
22 15 0.75
23 1 0.05
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (21 bp):
TACCATGGTACTGATACTCTA
Found at i:2171254 original size:20 final size:19
Alignment explanation
Indices: 2171213--2171283 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 19
2171203 TCTATTATCA
*
2171213 ATGGTATCGATAGCATCATC
1 ATGGTATCGATA-CATCCTC
2171233 ATGGTATCGATACTATCCTC
1 ATGGTATCGATAC-ATCCTC
* * **
2171253 ATAGTATCAATACCCCCTC
1 ATGGTATCGATACATCCTC
*
2171272 TTGGTATCGATA
1 ATGGTATCGATA
2171284 ATACTTGAAT
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
19 14 0.33
20 28 0.67
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.32
Consensus pattern (19 bp):
ATGGTATCGATACATCCTC
Found at i:2174144 original size:21 final size:22
Alignment explanation
Indices: 2174114--2174156 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
2174104 TTAGGATCAA
*
2174114 TGGGATTAGGAATAGGATTTGG
1 TGGGATTAGGAAGAGGATTTGG
*
2174136 TGGGA-TAGGAGGAGGATTTGG
1 TGGGATTAGGAAGAGGATTTGG
2174157 AAGAGGGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.26, C:0.00, G:0.47, T:0.28
Consensus pattern (22 bp):
TGGGATTAGGAAGAGGATTTGG
Found at i:2174913 original size:22 final size:22
Alignment explanation
Indices: 2174840--2174919 Score: 74
Period size: 23 Copynumber: 3.7 Consensus size: 22
2174830 GAACCCTTGA
*
2174840 GGGGTATCGATTCCCC-T-AAG
1 GGGGAATCGATTCCCCTTCAAG
* * *
2174860 AGGGAATCGGTTCCCATTCAAAG
1 GGGGAATCGATTCCCCTTC-AAG
* *
2174883 GGGGAATCGGTTCCCCTTCATG
1 GGGGAATCGATTCCCCTTCAAG
*
2174905 GGGGTATCGATTCCC
1 GGGGAATCGATTCCC
2174920 TCTGCCCTAT
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
20 12 0.25
21 1 0.02
22 15 0.31
23 20 0.42
ACGTcount: A:0.20, C:0.25, G:0.30, T:0.25
Consensus pattern (22 bp):
GGGGAATCGATTCCCCTTCAAG
Found at i:2183932 original size:113 final size:114
Alignment explanation
Indices: 2183806--2184030 Score: 371
Period size: 113 Copynumber: 2.0 Consensus size: 114
2183796 TTTGAATTTA
* * *
2183806 GGGGGGAGCACCAAGTCATGAACCAAGACTAGTTCACTTGTATCTATTTCATTATGAGAGTTTTG
1 GGGGGGAGCACCAAGTCAGGAACCAAAACTAGTTCACTTGCATCTATTTCATTATGAGAGTTTTG
* *
2183871 TCATCCCATTT-TTTTAATGTCTTTCTACACCAATTTTTTAAGTTCTAC
66 TCATCCCATTTCTTTGAATATCTTTCTACACCAATTTTTTAAGTTCTAC
*
2183919 GGGGGGAGCACCAAGTCAGGAACCAAAACTAGTTCACTTGCATCTATTTTATTATGAGAGTTTTG
1 GGGGGGAGCACCAAGTCAGGAACCAAAACTAGTTCACTTGCATCTATTTCATTATGAGAGTTTTG
* *
2183984 TCATCCCGTTTCTTTGAATATCTTTCTGCACCAATTTTTTAAGTTCT
66 TCATCCCATTTCTTTGAATATCTTTCTACACCAATTTTTTAAGTTCT
2184031 CAGGGATCTA
Statistics
Matches: 103, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
113 71 0.69
114 32 0.31
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.38
Consensus pattern (114 bp):
GGGGGGAGCACCAAGTCAGGAACCAAAACTAGTTCACTTGCATCTATTTCATTATGAGAGTTTTG
TCATCCCATTTCTTTGAATATCTTTCTACACCAATTTTTTAAGTTCTAC
Found at i:2184541 original size:21 final size:21
Alignment explanation
Indices: 2184517--2184556 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
2184507 AATGAATGCC
*
2184517 ATGCAGAATG-AAAAGATGTGA
1 ATGC-GAATGCAAAAAATGTGA
2184538 ATGCGAATGCAAAAAATGT
1 ATGCGAATGCAAAAAATGT
2184557 TGGTCCCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.47, C:0.07, G:0.25, T:0.20
Consensus pattern (21 bp):
ATGCGAATGCAAAAAATGTGA
Found at i:2190142 original size:7 final size:7
Alignment explanation
Indices: 2190127--2190174 Score: 51
Period size: 7 Copynumber: 6.9 Consensus size: 7
2190117 CAATGAACTT
*
2190127 TAAATCC
1 TAAACCC
2190134 TAAACCC
1 TAAACCC
**
2190141 TAAACTA
1 TAAACCC
**
2190148 TAAACTA
1 TAAACCC
2190155 TAAACCC
1 TAAACCC
2190162 TAAACCC
1 TAAACCC
2190169 TAAACC
1 TAAACC
2190175 ATTAATCTGT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
7 36 1.00
ACGTcount: A:0.48, C:0.31, G:0.00, T:0.21
Consensus pattern (7 bp):
TAAACCC
Found at i:2190172 original size:21 final size:21
Alignment explanation
Indices: 2190134--2190173 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2190124 CTTTAAATCC
*
2190134 TAAACCCTAAACTATAAACTA
1 TAAACCCTAAACCATAAACTA
*
2190155 TAAACCCTAAACCCTAAAC
1 TAAACCCTAAACCATAAAC
2190174 CATTAATCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.50, C:0.30, G:0.00, T:0.20
Consensus pattern (21 bp):
TAAACCCTAAACCATAAACTA
Found at i:2191717 original size:16 final size:16
Alignment explanation
Indices: 2191696--2191734 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
2191686 AGCGCCCGCG
2191696 AACAAGCTACATATAA
1 AACAAGCTACATATAA
2191712 AACAAGCTACATATAA
1 AACAAGCTACATATAA
2191728 AACAAGC
1 AACAAGC
2191735 GGGCTTGTGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.56, C:0.21, G:0.08, T:0.15
Consensus pattern (16 bp):
AACAAGCTACATATAA
Found at i:2199375 original size:27 final size:27
Alignment explanation
Indices: 2199337--2199396 Score: 120
Period size: 27 Copynumber: 2.2 Consensus size: 27
2199327 AAACATTCCA
2199337 TATGCTTATGTTGTTGGAAGCATGATT
1 TATGCTTATGTTGTTGGAAGCATGATT
2199364 TATGCTTATGTTGTTGGAAGCATGATT
1 TATGCTTATGTTGTTGGAAGCATGATT
2199391 TATGCT
1 TATGCT
2199397 CAAGTTTGTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.22, C:0.08, G:0.25, T:0.45
Consensus pattern (27 bp):
TATGCTTATGTTGTTGGAAGCATGATT
Found at i:2201474 original size:42 final size:42
Alignment explanation
Indices: 2201422--2201531 Score: 177
Period size: 42 Copynumber: 2.6 Consensus size: 42
2201412 TGATGTTGAT
2201422 TTTA-TTTAGACTTATTGAGACTTATTAGAGTTATGGTGTTA
1 TTTATTTTAGACTTATTGAGACTTATTAGAGTTATGGTGTTA
* * * *
2201463 TTTATTTTAGACTTATTGAAACTTAATGGTGTTATGGTGTTA
1 TTTATTTTAGACTTATTGAGACTTATTAGAGTTATGGTGTTA
2201505 TTTATTTTAGACTTATTGAGACTTATT
1 TTTATTTTAGACTTATTGAGACTTATT
2201532 TGATAAGATG
Statistics
Matches: 62, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
41 4 0.06
42 58 0.94
ACGTcount: A:0.26, C:0.05, G:0.17, T:0.51
Consensus pattern (42 bp):
TTTATTTTAGACTTATTGAGACTTATTAGAGTTATGGTGTTA
Found at i:2202360 original size:3 final size:3
Alignment explanation
Indices: 2202347--2202377 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
2202337 AATATATATG
2202347 TAT TAT T-T TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
2202378 CAAAAATCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:2202433 original size:15 final size:15
Alignment explanation
Indices: 2202387--2202433 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
2202377 ACAAAAATCC
*
2202387 ACAAAAAAAAAATAA
1 ACAAAAAAAAAACAA
*
2202402 A-AAGTAAAAAAATCAA
1 ACAA--AAAAAAAACAA
2202418 ACAAAAAAAAAACAA
1 ACAAAAAAAAAACAA
2202433 A
1 A
2202434 AGGAAATCCC
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
14 2 0.08
15 12 0.46
16 10 0.38
17 2 0.08
ACGTcount: A:0.83, C:0.09, G:0.02, T:0.06
Consensus pattern (15 bp):
ACAAAAAAAAAACAA
Found at i:2203537 original size:31 final size:31
Alignment explanation
Indices: 2203502--2203569 Score: 109
Period size: 31 Copynumber: 2.2 Consensus size: 31
2203492 TTGCAATACA
* *
2203502 ATCCCCCAATATTTAGTCTGTTTGTAATATG
1 ATCCCCCAACATTTAGTCTATTTGTAATATG
2203533 ATCCCCCAACATTTAGTCTATTTGTAATATG
1 ATCCCCCAACATTTAGTCTATTTGTAATATG
*
2203564 GTCCCC
1 ATCCCC
2203570 GACCGTTTGA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.25, C:0.25, G:0.12, T:0.38
Consensus pattern (31 bp):
ATCCCCCAACATTTAGTCTATTTGTAATATG
Found at i:2205703 original size:28 final size:29
Alignment explanation
Indices: 2205638--2205720 Score: 91
Period size: 29 Copynumber: 2.9 Consensus size: 29
2205628 ATATTAGTAC
* *
2205638 CTTTATTTTATGCAATTTTA-ATTTCAGTA
1 CTTTATTTTATGC-ACTTTACATTTCACTA
**
2205667 CTTTATTTTATTTA-TTTACATTTCACT-
1 CTTTATTTTATGCACTTTACATTTCACTA
2205694 CTTTATTTTTATGCACTTTACATTTCA
1 CTTTA-TTTTATGCACTTTACATTTCA
2205721 GTTCCATTGT
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
27 9 0.20
28 15 0.33
29 22 0.48
ACGTcount: A:0.24, C:0.14, G:0.04, T:0.58
Consensus pattern (29 bp):
CTTTATTTTATGCACTTTACATTTCACTA
Found at i:2206276 original size:2 final size:2
Alignment explanation
Indices: 2206271--2206311 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
2206261 GTTTCTTTAC
2206271 AT AT AT AT AT 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 AT AT AT AT AT A
2206312 GTTATTATAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2208689 original size:3 final size:3
Alignment explanation
Indices: 2208677--2208709 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
2208667 TTTCGTCCAA
2208677 ATT A-T ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
2208710 AATAATAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:2213548 original size:26 final size:25
Alignment explanation
Indices: 2213519--2213578 Score: 59
Period size: 26 Copynumber: 2.3 Consensus size: 25
2213509 ATCAAGTAGA
2213519 TCAAACCTGTACTTTTTCATCTCC-CT
1 TCAAACCTGTAC-TTTTCAT-TCCACT
* * *
2213545 TCAATTCTTGTACTTTTCATTCCATT
1 TCAA-ACCTGTACTTTTCATTCCACT
2213571 TCAAACCT
1 TCAAACCT
2213579 TTGCCTTTCA
Statistics
Matches: 27, Mismatches: 5, Indels: 5
0.73 0.14 0.14
Matches are distributed among these distances:
25 5 0.19
26 16 0.59
27 6 0.22
ACGTcount: A:0.22, C:0.30, G:0.03, T:0.45
Consensus pattern (25 bp):
TCAAACCTGTACTTTTCATTCCACT
Found at i:2218974 original size:29 final size:29
Alignment explanation
Indices: 2218915--2218994 Score: 112
Period size: 29 Copynumber: 2.8 Consensus size: 29
2218905 CAAACTAAAT
*
2218915 TGATGTCATTACTT--A-CATTTAATTAA
1 TGATGTCATTGCTTACATCATTTAATTAA
*
2218941 AGATGTCATTGCTTACATCATTTAATTAA
1 TGATGTCATTGCTTACATCATTTAATTAA
2218970 TGATGTCATTGCTTACATCAATTTA
1 TGATGTCATTGCTTACATC-ATTTA
2218995 GTTAGGTGAG
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
26 12 0.26
28 1 0.02
29 29 0.62
30 5 0.11
ACGTcount: A:0.33, C:0.14, G:0.10, T:0.44
Consensus pattern (29 bp):
TGATGTCATTGCTTACATCATTTAATTAA
Found at i:2221944 original size:29 final size:29
Alignment explanation
Indices: 2221909--2221990 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
2221899 AAACTAAATT
*
2221909 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAATTAAA
*
2221938 GATGTCATTGCTTACATCATTTAATTAAT
1 GATGTCATTGCTTACATCATTTAATTAAA
2221967 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
2221991 GTTAGGTGAG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 45 0.90
30 5 0.10
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.43
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAATTAAA
Found at i:2223366 original size:21 final size:21
Alignment explanation
Indices: 2223340--2223397 Score: 91
Period size: 21 Copynumber: 2.8 Consensus size: 21
2223330 ATTTACCGTG
2223340 ATTGCGGCCGTCGCAGG-CGCT
1 ATTGCGGCCGTCGC-GGACGCT
*
2223361 ATTGCGGTCGTCGCGGACGCT
1 ATTGCGGCCGTCGCGGACGCT
2223382 ATTGCGGCCGTCGCGG
1 ATTGCGGCCGTCGCGG
2223398 GTAACTTCTA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
20 2 0.06
21 32 0.94
ACGTcount: A:0.09, C:0.31, G:0.40, T:0.21
Consensus pattern (21 bp):
ATTGCGGCCGTCGCGGACGCT
Found at i:2227779 original size:31 final size:31
Alignment explanation
Indices: 2227744--2227810 Score: 116
Period size: 31 Copynumber: 2.2 Consensus size: 31
2227734 TTATAATAAG
2227744 TGTAAAAATTTGATAAATTTAATGATCATTT
1 TGTAAAAATTTGATAAATTTAATGATCATTT
* *
2227775 TGTAACAGTTTGATAAATTTAATGATCATTT
1 TGTAAAAATTTGATAAATTTAATGATCATTT
2227806 TGTAA
1 TGTAA
2227811 TTTTTAAAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.39, C:0.04, G:0.12, T:0.45
Consensus pattern (31 bp):
TGTAAAAATTTGATAAATTTAATGATCATTT
Found at i:2228749 original size:45 final size:45
Alignment explanation
Indices: 2228557--2228751 Score: 119
Period size: 45 Copynumber: 4.5 Consensus size: 45
2228547 GACATATAGC
* ** *
2228557 GGCGTTTTTATAGTAAAACGCCGC-TA-T-TG-ACAATTCTATAGT
1 GGCGTTTTTATAGTAAAACGCCGCAAATTATGTA-AAAACTTTAGT
* * * *
2228599 GGTG-TTTT-TAGTCATAAACACCGTAAATTATCTAAAAA-TTTAGT
1 GGCGTTTTTATAGT-A-AAACGCCGCAAATTATGTAAAAACTTTAGT
* * ** *
2228643 GGCGTTTTTATAGTAGAACGCCGC-TA-T-TG-ACAATTCTATAGT
1 GGCGTTTTTATAGTAAAACGCCGCAAATTATGTA-AAAACTTTAGT
*
2228685 GGCG-TTTT-TAGTCATAAACGTCGCAAATTATGTAAAAACTTTAGT
1 GGCGTTTTTATAGT-A-AAACGCCGCAAATTATGTAAAAACTTTAGT
2228730 GGCGTTTTTATAGTAAAACGCC
1 GGCGTTTTTATAGTAAAACGCC
2228752 ACTATTGACA
Statistics
Matches: 111, Mismatches: 24, Indels: 33
0.66 0.14 0.20
Matches are distributed among these distances:
40 9 0.08
41 13 0.12
42 27 0.24
43 3 0.03
44 16 0.14
45 28 0.25
46 11 0.10
47 4 0.04
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (45 bp):
GGCGTTTTTATAGTAAAACGCCGCAAATTATGTAAAAACTTTAGT
Found at i:2228772 original size:87 final size:87
Alignment explanation
Indices: 2228557--2228822 Score: 392
Period size: 86 Copynumber: 3.1 Consensus size: 87
2228547 GACATATAGC
* *
2228557 GGCGTTTTTATAGTAAAACGCCGCTATTGACAATTCTATAGTGGTGTTTTTAGTCATAAACACCG
1 GGCGTTTTTATAGTAAAACGCCGCTATTGACAATTCTATAGTGGCGTTTTTAGTCATAAACGCCG
*
2228622 TAAATTATCTAAAAA-TTTAGT
66 CAAATTATCTAAAAACTTTAGT
* *
2228643 GGCGTTTTTATAGTAGAACGCCGCTATTGACAATTCTATAGTGGCGTTTTTAGTCATAAACGTCG
1 GGCGTTTTTATAGTAAAACGCCGCTATTGACAATTCTATAGTGGCGTTTTTAGTCATAAACGCCG
*
2228708 CAAATTATGTAAAAACTTTAGT
66 CAAATTATCTAAAAACTTTAGT
* * * * **
2228730 GGCGTTTTTATAGTAAAACGCCACTATTGACAATTTTATAGTGTCATTTTTTTTTGCATAAACGC
1 GGCGTTTTTATAGTAAAACGCCGCTATTGACAATTCTATAGTGGC-GTTTTTAGT-CATAAACGC
2228795 CGCAAATTATCT-AAAACTTTAGT
64 CGCAAATTATCTAAAAACTTTAGT
2228818 GGCGT
1 GGCGT
2228823 CGGTATTGAT
Statistics
Matches: 162, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
86 74 0.46
87 47 0.29
88 22 0.14
89 19 0.12
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.37
Consensus pattern (87 bp):
GGCGTTTTTATAGTAAAACGCCGCTATTGACAATTCTATAGTGGCGTTTTTAGTCATAAACGCCG
CAAATTATCTAAAAACTTTAGT
Found at i:2228994 original size:21 final size:21
Alignment explanation
Indices: 2228961--2229004 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
2228951 CATGACATCT
* *
2228961 ATAACAACAAACTTTAATTCC
1 ATAACAACAAACTTCAAATCC
2228982 ATAACAATC-AACTTCAAATCC
1 ATAACAA-CAAACTTCAAATCC
2229003 AT
1 AT
2229005 TATAGTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.48, C:0.25, G:0.00, T:0.27
Consensus pattern (21 bp):
ATAACAACAAACTTCAAATCC
Found at i:2234895 original size:45 final size:45
Alignment explanation
Indices: 2234831--2234916 Score: 172
Period size: 45 Copynumber: 1.9 Consensus size: 45
2234821 TCTATTTTAT
2234831 TTATAGTTGTATATTGGTATAGATATGATCTATAATTTATTATCA
1 TTATAGTTGTATATTGGTATAGATATGATCTATAATTTATTATCA
2234876 TTATAGTTGTATATTGGTATAGATATGATCTATAATTTATT
1 TTATAGTTGTATATTGGTATAGATATGATCTATAATTTATT
2234917 TATAAACCTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.33, C:0.03, G:0.14, T:0.50
Consensus pattern (45 bp):
TTATAGTTGTATATTGGTATAGATATGATCTATAATTTATTATCA
Found at i:2237286 original size:41 final size:41
Alignment explanation
Indices: 2237181--2237604 Score: 342
Period size: 41 Copynumber: 10.4 Consensus size: 41
2237171 CCTCAGCACC
* * * * *
2237181 AAAGTAC-AATATTTAGCGGCGTTTGTGCTTAAAACACCACT
1 AAAGTACGAGTATTTAGCGGCGTTTAT-ATAAAAACGCCACT
* * * * *
2237222 AAAGAACTAGTATTTACCGGCGTTTGTATACAAACGCCACT
1 AAAGTACGAGTATTTAGCGGCGTTTATATAAAAACGCCACT
* *
2237263 AAAGTACGAGTCTTTAGCAGCGTTTATATAAAAACGCCACT
1 AAAGTACGAGTATTTAGCGGCGTTTATATAAAAACGCCACT
* * *
2237304 AAAGTACGAGTATTTACCTGCGTTTGT-TAAAAAACCGCCACT
1 AAAGTACGAGTATTTAGCGGCGTTTATAT-AAAAA-CGCCACT
* * * * *
2237346 AAAGTATGATTATTTACCGGCGTTTGT-TAAAAAATGCCACT
1 AAAGTACGAGTATTTAGCGGCGTTTATAT-AAAAACGCCACT
* * * *
2237387 AAAATA-TAATATTTAGCGGTGTTTATATAAAAACGCCACT
1 AAAGTACGAGTATTTAGCGGCGTTTATATAAAAACGCCACT
* * * *
2237427 AAAATACGAGTATTTACCGGCGTTTGT-TCAAAAAATGCCACT
1 AAAGTACGAGTATTTAGCGGCGTTTATAT--AAAAACGCCACT
* * * *
2237469 AAAGCAC-AATATTTAGCGACGTTTATATCAAAACGCCACT
1 AAAGTACGAGTATTTAGCGGCGTTTATATAAAAACGCCACT
* * * * * * * *
2237509 AAAATATGAGTCTTTAGAGACGTTTTTACAAAAATGCCACT
1 AAAGTACGAGTATTTAGCGGCGTTTATATAAAAACGCCACT
* * *
2237550 AAAGTAC-AATATTTAGCGGTGTTTATAT-AAAACGTCACT
1 AAAGTACGAGTATTTAGCGGCGTTTATATAAAAACGCCACT
*
2237589 AAAATACGAGTATTTA
1 AAAGTACGAGTATTTA
2237605 CTGGCGTCAG
Statistics
Matches: 307, Mismatches: 66, Indels: 21
0.78 0.17 0.05
Matches are distributed among these distances:
39 15 0.05
40 69 0.22
41 151 0.49
42 72 0.23
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.30
Consensus pattern (41 bp):
AAAGTACGAGTATTTAGCGGCGTTTATATAAAAACGCCACT
Found at i:2237318 original size:82 final size:81
Alignment explanation
Indices: 2237217--2237605 Score: 401
Period size: 82 Copynumber: 4.8 Consensus size: 81
2237207 GCTTAAAACA
* * * * * * * *
2237217 CCACTAAAGAACTAGTATTTACCGGCGTTTGTATACAAACGCCACTAAAGTACGAGTCTTTAGCA
1 CCACTAAAGTAC-AATATTTAGCGGCGTTTATATAAAAACGCCACTAAAATACGAGTATTTACCA
* *
2237282 GCGTTT-ATATAAAAACG
65 GCGTTTGTTA-AAAAATG
* * * * * * *
2237299 CCACTAAAGTACGAGTATTTACCTGCGTTTGT-TAAAAAACCGCCACTAAAGTATGATTATTTAC
1 CCACTAAAGTAC-AATATTTAGCGGCGTTTATAT-AAAAA-CGCCACTAAAATACGAGTATTTAC
*
2237363 CGGCGTTTGTTAAAAAATG
63 CAGCGTTTGTTAAAAAATG
* * * *
2237382 CCACTAAAATATAATATTTAGCGGTGTTTATATAAAAACGCCACTAAAATACGAGTATTTACCGG
1 CCACTAAAGTACAATATTTAGCGGCGTTTATATAAAAACGCCACTAAAATACGAGTATTTACCAG
2237447 CGTTTGTTCAAAAAATG
66 CGTTTGTT-AAAAAATG
* * * * * *
2237464 CCACTAAAGCACAATATTTAGCGACGTTTATATCAAAACGCCACTAAAATATGAGTCTTTA-GAG
1 CCACTAAAGTACAATATTTAGCGGCGTTTATATAAAAACGCCACTAAAATACGAGTATTTACCAG
2237528 ACGTTT-TTACAAAAATG
66 -CGTTTGTTA-AAAAATG
* *
2237545 CCACTAAAGTACAATATTTAGCGGTGTTTATAT-AAAACGTCACTAAAATACGAGTATTTAC
1 CCACTAAAGTACAATATTTAGCGGCGTTTATATAAAAACGCCACTAAAATACGAGTATTTAC
2237606 TGGCGTCAGT
Statistics
Matches: 262, Mismatches: 37, Indels: 17
0.83 0.12 0.05
Matches are distributed among these distances:
80 25 0.10
81 73 0.28
82 118 0.45
83 44 0.17
84 2 0.01
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.30
Consensus pattern (81 bp):
CCACTAAAGTACAATATTTAGCGGCGTTTATATAAAAACGCCACTAAAATACGAGTATTTACCAG
CGTTTGTTAAAAAATG
Found at i:2239414 original size:15 final size:15
Alignment explanation
Indices: 2239394--2239733 Score: 86
Period size: 15 Copynumber: 22.3 Consensus size: 15
2239384 TGAAAAATTT
2239394 TATAATATATATATA
1 TATAATATATATATA
*
2239409 TATAATATAGGTTTATA
1 TATAATATA--TATATA
*
2239426 TATAAACTATATTTATA
1 TAT-AA-TATATATATA
2239443 TTATAA-ATTATATAATTA
1 -TATAATA-TATAT-A-TA
**
2239461 TTATAAGCTATATATA
1 -TATAATATATATATA
* * *
2239477 TA-AAT-TGTGTTTA
1 TATAATATATATATA
*
2239490 TATGAA-CTATATATA
1 TAT-AATATATATATA
*
2239505 TA-AAT-TATGTATA
1 TATAATATATATATA
*
2239518 TA-AACTATATATCTA
1 TATAA-TATATATATA
* *
2239533 TA-AACTATAAAAAGTA
1 TATAA-TATATATA-TA
* *
2239549 TATAGT-T-TATAAA
1 TATAATATATATATA
*
2239562 CTATAATTTATAT-TAA
1 -TATAATATATATAT-A
**
2239578 TATGGTATATATATA
1 TATAATATATATATA
*
2239593 TATAA-ACTATATATG
1 TATAATA-TATATATA
*
2239608 TATAAACTATATAAATA
1 TAT-AA-TATATATATA
* *
2239625 TATAGTTTATATAT-
1 TATAATATATATATA
*
2239639 TATAATTTATAT-TAA
1 TATAATATATATAT-A
*
2239654 TATAGTATATATATA
1 TATAATATATATATA
* *
2239669 TGT-ATGTATA-ACTAA
1 TATAATATATATA-T-A
*
2239684 TATAAGTA-ATCTATA
1 TATAA-TATATATATA
* *
2239699 GATTATATATATATA
1 TATAATATATATATA
*
2239714 TAT-ATATATAGTTTA
1 TATAATATATA-TATA
2239729 TATAA
1 TATAA
2239734 ACATTATGCA
Statistics
Matches: 241, Mismatches: 47, Indels: 73
0.67 0.13 0.20
Matches are distributed among these distances:
13 23 0.10
14 37 0.15
15 103 0.43
16 25 0.10
17 30 0.12
18 19 0.08
19 4 0.02
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.45
Consensus pattern (15 bp):
TATAATATATATATA
Found at i:2239449 original size:18 final size:18
Alignment explanation
Indices: 2239420--2239478 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
2239410 ATAATATAGG
2239420 TTTATA-TATAAACTATA
1 TTTATATTATAAACTATA
*
2239437 TTTATATTATAAATTATA
1 TTTATATTATAAACTATA
* *
2239455 -TAATTATTATAAGCTATA
1 TTTA-TATTATAAACTATA
*
2239473 TATATA
1 TTTATA
2239479 AATTGTGTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
17 8 0.24
18 24 0.73
19 1 0.03
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (18 bp):
TTTATATTATAAACTATA
Found at i:2239508 original size:28 final size:26
Alignment explanation
Indices: 2239462--2239529 Score: 91
Period size: 28 Copynumber: 2.5 Consensus size: 26
2239452 ATATAATTAT
* *
2239462 TATAAGCTATATATATAAATTGTGTTTA
1 TATAAACTATATATATAAATTATG--TA
*
2239490 TATGAACTATATATATAAATTATGTA
1 TATAAACTATATATATAAATTATGTA
2239516 TATAAACTATATAT
1 TATAAACTATATAT
2239530 CTATAAACTA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
26 15 0.42
28 21 0.58
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.44
Consensus pattern (26 bp):
TATAAACTATATATATAAATTATGTA
Found at i:2239534 original size:28 final size:28
Alignment explanation
Indices: 2239439--2239536 Score: 85
Period size: 28 Copynumber: 3.4 Consensus size: 28
2239429 AAACTATATT
* *
2239439 TATATTATAAATTATATAATTATTATAAGCTA
1 TATATTATAAA-T-TAT-GTTA-TATAAACTA
* *
2239471 TATA-TATAAATTGTGTTTATATGAACTA
1 TATATTATAAATTATG-TTATATAAACTA
2239499 TATA-TATAAATTATG-TATATAAACTA
1 TATATTATAAATTATGTTATATAAACTA
2239525 TATATCTATAAA
1 TATAT-TATAAA
2239537 CTATAAAAAG
Statistics
Matches: 57, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
26 14 0.25
28 27 0.47
29 5 0.09
30 1 0.02
31 6 0.11
32 4 0.07
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.45
Consensus pattern (28 bp):
TATATTATAAATTATGTTATATAAACTA
Found at i:2239652 original size:76 final size:77
Alignment explanation
Indices: 2239514--2239669 Score: 260
Period size: 76 Copynumber: 2.0 Consensus size: 77
2239504 ATAAATTATG
2239514 TATATAAACTATATATCTATAAACTATAAAAAGTATATAGTTTATAAACTATAATTTATATTAAT
1 TATATAAACTATATATCTATAAACTATAAAAAGTATATAGTTTATAAACTATAATTTATATTAAT
*
2239579 ATGGTATATATA
66 ATAGTATATATA
* * * *
2239591 TATATAAACTATATATGTATAAACTATATAAA-TATATAGTTTATATATTATAATTTATATTAAT
1 TATATAAACTATATATCTATAAACTATAAAAAGTATATAGTTTATAAACTATAATTTATATTAAT
2239655 ATAGTATATATA
66 ATAGTATATATA
2239667 TAT
1 TAT
2239670 GTATGTATAA
Statistics
Matches: 74, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
76 44 0.59
77 30 0.41
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.44
Consensus pattern (77 bp):
TATATAAACTATATATCTATAAACTATAAAAAGTATATAGTTTATAAACTATAATTTATATTAAT
ATAGTATATATA
Found at i:2239667 original size:31 final size:32
Alignment explanation
Indices: 2239583--2239673 Score: 89
Period size: 32 Copynumber: 2.9 Consensus size: 32
2239573 ATTAATATGG
* *
2239583 TATATATATATATA-AACTATATATGTATAAAC
1 TATATAAATATATAGTA-TATATATGTATAAAC
* **
2239615 TATATAAATATATAGTTTATATAT-TATAATT
1 TATATAAATATATAGTATATATATGTATAAAC
*
2239646 TATATTAATATAGTA-TATATATATGTAT
1 TATATAAATATA-TAGTATATATATGTAT
2239674 GTATAACTAA
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
31 24 0.49
32 25 0.51
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.47
Consensus pattern (32 bp):
TATATAAATATATAGTATATATATGTATAAAC
Found at i:2239678 original size:12 final size:11
Alignment explanation
Indices: 2239585--2239732 Score: 57
Period size: 11 Copynumber: 13.7 Consensus size: 11
2239575 TAATATGGTA
2239585 TATATATATA-
1 TATATATATAG
*
2239595 TAAACTATATATG
1 TATA-TATATA-G
*
2239608 TATAAACTATA-
1 TATATA-TATAG
*
2239619 TAAATATATAG
1 TATATATATAG
*
2239630 T-T-TATATAT
1 TATATATATAG
*
2239639 TATA-ATTTA-
1 TATATATATAG
2239648 TAT-TAATATAG
1 TATAT-ATATAG
2239659 TATATATATATG
1 TATATATATA-G
* *
2239671 TATGTATA-AC
1 TATATATATAG
2239681 TA-ATATA-AG
1 TATATATATAG
*
2239690 TA-ATCTATAG
1 TATATATATAG
*
2239700 ATTATATATATATA
1 --TATATATATA-G
2239714 TATATATATAG
1 TATATATATAG
*
2239725 TTTATATA
1 TATATATA
2239733 AACATTATGC
Statistics
Matches: 103, Mismatches: 18, Indels: 33
0.67 0.12 0.21
Matches are distributed among these distances:
9 21 0.20
10 20 0.19
11 27 0.26
12 22 0.21
13 13 0.13
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (11 bp):
TATATATATAG
Found at i:2239732 original size:2 final size:2
Alignment explanation
Indices: 2239583--2239723 Score: 75
Period size: 2 Copynumber: 72.0 Consensus size: 2
2239573 ATTAATATGG
* * * *
2239583 TA TA TA TA TA TA TA AA CTA TA TA TG TA TA AA CTA TA TA AA TA TA
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA TA TA TA
* *
2239627 TA GTT TA TA TA T- TA TA -A TT TA TA T- TA -A TA TA GTA 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
* * * *
2239667 TA TG TA TG TA TA -A CTA -A TA TA -A GTA -A TC TA TA GA T- TA TA
1 TA TA TA TA TA TA TA -TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
2239706 TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA
2239724 GTTTATATAA
Statistics
Matches: 104, Mismatches: 20, Indels: 30
0.68 0.13 0.19
Matches are distributed among these distances:
1 9 0.09
2 88 0.85
3 7 0.07
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (2 bp):
TA
Found at i:2240062 original size:20 final size:19
Alignment explanation
Indices: 2240030--2240102 Score: 75
Period size: 16 Copynumber: 4.1 Consensus size: 19
2240020 CTTATAGTAC
* *
2240030 ATATATGTATAAACTATGT
1 ATATATATATAAACTATAT
2240049 ATAGTATATATAAAC--TAT
1 ATA-TATATATAAACTATAT
*
2240067 ATATATATA-ACA-TA-AT
1 ATATATATATAAACTATAT
2240083 ATATATATATAAACTATAT
1 ATATATATATAAACTATAT
2240102 A
1 A
2240103 AAGTAAATTA
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
16 13 0.30
17 8 0.18
18 7 0.16
19 6 0.14
20 10 0.23
ACGTcount: A:0.51, C:0.05, G:0.04, T:0.40
Consensus pattern (19 bp):
ATATATATATAAACTATAT
Found at i:2240187 original size:7 final size:7
Alignment explanation
Indices: 2240177--2240215 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
2240167 TAATTTATAA
2240177 AAACCCT
1 AAACCCT
2240184 AAACCCT
1 AAACCCT
**
2240191 AAATACT
1 AAACCCT
2240198 AAACCCT
1 AAACCCT
*
2240205 AAATCCT
1 AAACCCT
2240212 AAAC
1 AAAC
2240216 GATATATTTA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.49, C:0.33, G:0.00, T:0.18
Consensus pattern (7 bp):
AAACCCT
Found at i:2240201 original size:14 final size:14
Alignment explanation
Indices: 2240182--2240215 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
2240172 TATAAAAACC
2240182 CTAAACCCTAAATA
1 CTAAACCCTAAATA
*
2240196 CTAAACCCTAAATC
1 CTAAACCCTAAATA
2240210 CTAAAC
1 CTAAAC
2240216 GATATATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.47, C:0.32, G:0.00, T:0.21
Consensus pattern (14 bp):
CTAAACCCTAAATA
Found at i:2241124 original size:23 final size:24
Alignment explanation
Indices: 2241096--2241149 Score: 101
Period size: 23 Copynumber: 2.3 Consensus size: 24
2241086 TTATTTTTTC
2241096 TTTACATAAATTAAACTATA-TAA
1 TTTACATAAATTAAACTATATTAA
2241119 TTTACATAAATTAAACTATATTAA
1 TTTACATAAATTAAACTATATTAA
2241143 TTTACAT
1 TTTACAT
2241150 TTAATCATTG
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 20 0.67
24 10 0.33
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.43
Consensus pattern (24 bp):
TTTACATAAATTAAACTATATTAA
Found at i:2241237 original size:13 final size:12
Alignment explanation
Indices: 2241169--2241238 Score: 61
Period size: 13 Copynumber: 5.4 Consensus size: 12
2241159 GTTCAATGCC
2241169 AATAATTTTATT
1 AATAATTTTATT
*
2241181 AATAATGTT-TT
1 AATAATTTTATT
*
2241192 ATATAATTTACATTT
1 A-ATAATTT-TA-TT
2241207 AAATAATTTTATT
1 -AATAATTTTATT
2241220 AAATAATTTTATAT
1 -AATAATTTTAT-T
2241234 AATAA
1 AATAA
2241239 GTCTATTTAT
Statistics
Matches: 48, Mismatches: 4, Indels: 11
0.76 0.06 0.17
Matches are distributed among these distances:
11 3 0.06
12 14 0.29
13 19 0.40
14 2 0.04
15 9 0.19
16 1 0.02
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (12 bp):
AATAATTTTATT
Found at i:2241449 original size:16 final size:16
Alignment explanation
Indices: 2241428--2241464 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
2241418 GATCATTTAT
2241428 AGGTCAGGTTAAAAAC
1 AGGTCAGGTTAAAAAC
* *
2241444 AGGTCATGTTGAAAAC
1 AGGTCAGGTTAAAAAC
2241460 AGGTC
1 AGGTC
2241465 GGGTAATACC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.38, C:0.14, G:0.27, T:0.22
Consensus pattern (16 bp):
AGGTCAGGTTAAAAAC
Found at i:2244505 original size:17 final size:17
Alignment explanation
Indices: 2244448--2244497 Score: 55
Period size: 19 Copynumber: 2.8 Consensus size: 17
2244438 AATGTATTTT
* *
2244448 ATGCATCGATGCACATACC
1 ATGCATTGATGCAC-T-CA
2244467 ATGCATTGATGCACTCA
1 ATGCATTGATGCACTCA
2244484 ATGCATTTGATGCA
1 ATGCA-TTGATGCA
2244498 TCGATGCACT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 6 0.21
18 9 0.32
19 13 0.46
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (17 bp):
ATGCATTGATGCACTCA
Found at i:2246175 original size:14 final size:15
Alignment explanation
Indices: 2246150--2246178 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
2246140 TTGATTTTGA
2246150 TGTTTCTGGATTGTT
1 TGTTTCTGGATTGTT
2246165 TGTTT-TGGATTGTT
1 TGTTTCTGGATTGTT
2246179 AATTGTTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.07, C:0.03, G:0.28, T:0.62
Consensus pattern (15 bp):
TGTTTCTGGATTGTT
Found at i:2246962 original size:19 final size:19
Alignment explanation
Indices: 2246938--2246989 Score: 95
Period size: 19 Copynumber: 2.7 Consensus size: 19
2246928 AGTGCATTTG
2246938 ATGCATCGATGCACAAACC
1 ATGCATCGATGCACAAACC
*
2246957 ATGCATCGATACACAAACC
1 ATGCATCGATGCACAAACC
2246976 ATGCATCGATGCAC
1 ATGCATCGATGCAC
2246990 TCTGGCTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.37, C:0.31, G:0.15, T:0.17
Consensus pattern (19 bp):
ATGCATCGATGCACAAACC
Found at i:2247025 original size:64 final size:63
Alignment explanation
Indices: 2246828--2247030 Score: 180
Period size: 64 Copynumber: 3.2 Consensus size: 63
2246818 TTTCAAAATG
* * * * * *
2246828 ATGCACCGATACACCAATCCATGCATCGATGCACTATGGATTAAATTG-AACATCGAATCCATTT
1 ATGCATCGATACA-CAAACCATGCATCGATGCACTCTGG-CT-ATTTGAAACATCGAATACATTT
2246892 T
63 T
* * ** **
2246893 ATGCATCGATGCACATAA-CATGCATCGATGCACTCAGTGC-ATTTGATGCATCG-ATGCACAAA
1 ATGCATCGATACACA-AACCATGCATCGATGCACTCTG-GCTATTTGAAACATCGAAT--ACATT
**
2246955 CC
62 TT
2246957 ATGCATCGATACACAAACCATGCATCGATGCACTCTGGCTATTTTGAAACATCGAATACATTTT
1 ATGCATCGATACACAAACCATGCATCGATGCACTCTGGCTA-TTTGAAACATCGAATACATTTT
2247021 ATGCATCGAT
1 ATGCATCGAT
2247031 GCACTATTAG
Statistics
Matches: 107, Mismatches: 22, Indels: 19
0.72 0.15 0.13
Matches are distributed among these distances:
62 6 0.06
63 9 0.08
64 67 0.63
65 23 0.21
66 2 0.02
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.27
Consensus pattern (63 bp):
ATGCATCGATACACAAACCATGCATCGATGCACTCTGGCTATTTGAAACATCGAATACATTTT
Found at i:2249232 original size:89 final size:89
Alignment explanation
Indices: 2249069--2249248 Score: 218
Period size: 89 Copynumber: 2.0 Consensus size: 89
2249059 AAACTCTAAC
** * * * * *
2249069 GTTTACAAATAAAGCAAATTGAGTTATTAGGATCGCCCTCGCCTCTTTATTACTTGATTTGTATT
1 GTTTACAAATAAAGCAAATTGAGTTAGGAGGATCGCCCTCACCTCTTTAGTACTTAATCTGAATT
* ** *
2249134 AGTTTGTCAATATATCAGATACAT
66 AATCGGTCAATACATCAGATACAT
* * *
2249158 GTTTGCAAATGAAA-CAAATTGGGTTAGGAGGATCGTCCTCACCTCTTTAGTACTTAATCTGAAT
1 GTTTACAAAT-AAAGCAAATTGAGTTAGGAGGATCGCCCTCACCTCTTTAGTACTTAATCTGAAT
2249222 TAATCGGTCAATACATCAGATACAT
65 TAATCGGTCAATACATCAGATACAT
2249247 GT
1 GT
2249249 CATCAATTAA
Statistics
Matches: 76, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
89 73 0.96
90 3 0.04
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.36
Consensus pattern (89 bp):
GTTTACAAATAAAGCAAATTGAGTTAGGAGGATCGCCCTCACCTCTTTAGTACTTAATCTGAATT
AATCGGTCAATACATCAGATACAT
Found at i:2252062 original size:13 final size:13
Alignment explanation
Indices: 2252044--2252068 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2252034 TATTCTCAAT
2252044 TAAAATTTTTAAA
1 TAAAATTTTTAAA
2252057 TAAAATTTTTAA
1 TAAAATTTTTAA
2252069 TTAGATGTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TAAAATTTTTAAA
Found at i:2252503 original size:31 final size:32
Alignment explanation
Indices: 2252453--2252512 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 32
2252443 AATAATTCGA
* *
2252453 GTTACTTTCAGTTCGAGTTG-TTTCGGTTTGG
1 GTTAATTTCAGTTCAAGTTGCTTTCGGTTTGG
* *
2252484 GTTAATTTTAGTTCAAGTTGCTTTTGGTT
1 GTTAATTTCAGTTCAAGTTGCTTTCGGTT
2252513 CAACTAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 17 0.71
32 7 0.29
ACGTcount: A:0.13, C:0.10, G:0.25, T:0.52
Consensus pattern (32 bp):
GTTAATTTCAGTTCAAGTTGCTTTCGGTTTGG
Found at i:2258176 original size:8 final size:8
Alignment explanation
Indices: 2258124--2258174 Score: 52
Period size: 8 Copynumber: 6.4 Consensus size: 8
2258114 ATTTAAGTAC
2258124 TATAT-TT
1 TATATATT
2258131 TATA-ATTT
1 TATATA-TT
2258139 TATATATT
1 TATATATT
*
2258147 ATATATATA
1 -TATATATT
2258156 TATATATT
1 TATATATT
*
2258164 TATTTATT
1 TATATATT
2258172 TAT
1 TAT
2258175 TTTCTATATT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
7 4 0.11
8 25 0.68
9 8 0.22
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (8 bp):
TATATATT
Found at i:2258182 original size:21 final size:21
Alignment explanation
Indices: 2258158--2258199 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
2258148 TATATATATA
2258158 TATATT-TATTTATTTATTTTC
1 TATATTGTATTTA-TTATTTTC
*
2258179 TATATTGTTTTTATTATTTTC
1 TATATTGTATTTATTATTTTC
2258200 GGGGTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.21, C:0.05, G:0.02, T:0.71
Consensus pattern (21 bp):
TATATTGTATTTATTATTTTC
Found at i:2258270 original size:3 final size:3
Alignment explanation
Indices: 2258262--2258308 Score: 76
Period size: 3 Copynumber: 15.3 Consensus size: 3
2258252 TCTTTTGTCT
*
2258262 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TAA TTTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA
2258308 T
1 T
2258309 ACATATGTAT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
3 39 0.95
4 2 0.05
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:2258644 original size:54 final size:53
Alignment explanation
Indices: 2258586--2258720 Score: 155
Period size: 54 Copynumber: 2.5 Consensus size: 53
2258576 TATTCATATT
* * *
2258586 TATTTATTTATTTATCCATTTTTTGTCTTTATCTTTATTTTTTTAATTTCTTTA
1 TATTTATTTATTTATTCATTTTTTATCTTT-TCTCTATTTTTTTAATTTCTTTA
* * * *
2258640 TATTTATATTTTTTATTTACTTTTTATCTTTTCTCTATTTTTTTATTTTCTTTA
1 TATTTAT-TTATTTATTCATTTTTTATCTTTTCTCTATTTTTTTAATTTCTTTA
*
2258694 TCTTGT-TTTATTTACTTCATTTTTTAT
1 TATT-TATTTATTTA-TTCATTTTTTAT
2258721 TTTATTCTTT
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
53 6 0.09
54 42 0.63
55 19 0.28
ACGTcount: A:0.17, C:0.10, G:0.01, T:0.72
Consensus pattern (53 bp):
TATTTATTTATTTATTCATTTTTTATCTTTTCTCTATTTTTTTAATTTCTTTA
Found at i:2258662 original size:24 final size:23
Alignment explanation
Indices: 2258611--2258662 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 23
2258601 CCATTTTTTG
*
2258611 TCTTTATCTTTATTTTTTTAATT
1 TCTTTATATTTATTTTTTTAATT
2258634 TCTTTATATTTATATTTTTT-ATT
1 TCTTTATATTTAT-TTTTTTAATT
2258657 TACTTT
1 T-CTTT
2258663 TTATCTTTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 16 0.62
24 10 0.38
ACGTcount: A:0.19, C:0.08, G:0.00, T:0.73
Consensus pattern (23 bp):
TCTTTATATTTATTTTTTTAATT
Found at i:2258702 original size:19 final size:17
Alignment explanation
Indices: 2258586--2258723 Score: 54
Period size: 17 Copynumber: 7.8 Consensus size: 17
2258576 TATTCATATT
*
2258586 TATTTATTTATTTATC-C
1 TATTTTTTTATTT-TCTC
* *
2258603 -ATTTTTTGTCTTTATCTT
1 TATTTTTT-TATTT-TCTC
* *
2258621 TATTTTTTTAATTTCTT
1 TATTTTTTTATTTTCTC
* *
2258638 TATATTTATATTTT-T-
1 TATTTTTTTATTTTCTC
2258653 TATTTACTTTTTATCTTTTCTC
1 TA-TT--TTTTTA--TTTTCTC
*
2258675 TATTTTTTTATTTTCTT
1 TATTTTTTTATTTTCTC
*
2258692 TATCTTGTTTTATTTACT-
1 TAT-TT-TTTTATTTTCTC
2258710 TCA-TTTTTTATTTT
1 T-ATTTTTTTATTTT
2258724 ATTCTTTTTG
Statistics
Matches: 95, Mismatches: 13, Indels: 27
0.70 0.10 0.20
Matches are distributed among these distances:
15 2 0.02
16 16 0.17
17 33 0.35
18 11 0.12
19 24 0.25
20 4 0.04
21 3 0.03
22 2 0.02
ACGTcount: A:0.17, C:0.09, G:0.01, T:0.72
Consensus pattern (17 bp):
TATTTTTTTATTTTCTC
Found at i:2261492 original size:95 final size:95
Alignment explanation
Indices: 2261380--2261630 Score: 322
Period size: 95 Copynumber: 2.7 Consensus size: 95
2261370 ATATTATAAT
* * * *
2261380 ATTATATATATACAATAAAGCTTGAGTTGTCCCTCTAAAGTAATTGGTTAAACGCCTCGTCTTTA
1 ATTATA-ATATAAAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCCGACTTTA
2261445 TGGATAAGATTCAGCTAGCCTGATAAAGGCG
65 TGGATAAGATTCAGCTAGCCTGATAAAGGCG
* *
2261476 ATTATAATATAAAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACTCCCCGACTTTAT
1 ATTATAATATAAAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCCGACTTTAT
* *
2261541 GGATAATATTCAGCTAGCCTGATAAAGGTG
66 GGATAAGATTCAGCTAGCCTGATAAAGGCG
* * * *
2261571 ATTAT-A-AT---A-CAA--TTGAGTTGTCTCTCTAGAGCAATTGGTTAAACGCCCTG-CTTTAT
1 ATTATAATATAAAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCCGACTTTAT
2261627 GGAT
66 GGAT
2261631 CCAGCTAGCC
Statistics
Matches: 143, Mismatches: 12, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
86 10 0.07
87 35 0.24
89 2 0.01
90 1 0.01
93 2 0.01
94 1 0.01
95 86 0.60
96 6 0.04
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (95 bp):
ATTATAATATAAAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCCGACTTTAT
GGATAAGATTCAGCTAGCCTGATAAAGGCG
Found at i:2262925 original size:84 final size:84
Alignment explanation
Indices: 2262769--2263647 Score: 1017
Period size: 84 Copynumber: 10.5 Consensus size: 84
2262759 AACTATTGGT
* *
2262769 AGCATAACTCAAGGCTAGAAGGGTTATCTACCAACAAAAGACCTTCGAGTTCGACTACGCTCAGC
1 AGCATAACTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGC
*
2262834 TCTAAGGCACATCATTTGC
66 TCCAAGGCACATCATTTGC
* * * * * * * * * *
2262853 AACATAGCTCAAGGCAAGAAAGGTTATTTTCCAAAAAAATACCTTCGATTTCGACTACGCTTAAC
1 AGCATAACTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGC
*
2262918 TCCAAGGCATATCATTTGC
66 TCCAAGGCACATCATTTGC
* * * *
2262937 AGTATAACTCAAGGCTAGAAGGGTTATCTACCAACAAAAGACCTTCGAGTTTGACTACGCTCAGC
1 AGCATAACTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGC
*
2263002 TCCAAGGTACATCATTTGC
66 TCCAAGGCACATCATTTGC
** * * * * * *
2263021 AATATAGCTCAAGGCAAGAAGGGCTATTTTCCAATAAAAGACATTCGAGTTCGACTACGCTCAGC
1 AGCATAACTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGC
*
2263086 TCCAAGGCACATCATTTGT
66 TCCAAGGCACATCATTTGC
* * * * *
2263105 AACATATCTCAAGGCAAGAAGGGCTATTTGCCAACAAAAGACCTTCGAGTTTGACTACGCTCAGC
1 AGCATAACTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGC
2263170 TCCAAGGCACATCATTTGC
66 TCCAAGGCACATCATTTGC
* * * *
2263189 AGCATAACTCAAGGCTATAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTCAGC
1 AGCATAACTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGC
* *
2263254 TCAAAGGCACAACATTTGC
66 TCCAAGGCACATCATTTGC
* * * * *
2263273 AGCATAACTCAAGACGAGAAGGGTTATTTGCCAACAAAAGACCTTCGAGTTCGACTATGCTCAAC
1 AGCATAACTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGC
** * *
2263338 TCTGAGGCATATCATTTAC
66 TCCAAGGCACATCATTTGC
* * * *
2263357 AGTATAACTCAAGGCTAA-AAGGGTTATCTGCCAACAAAAGACCTTCGAGTTTGATTACACTCAG
1 AGCATAACTCAAGGC-AAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAG
* * *
2263421 CTCAAAGGCATAACATTTGC
65 CTCCAAGGCACATCATTTGC
* * ** *
2263441 AGCATAACTGAAGGCTAA-AAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTAAACTTAG
1 AGCATAACTCAAGGC-AAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAG
* *
2263505 CTTCAAGGCACATCATTTCC
65 CTCCAAGGCACATCATTTGC
* * * * * * * * *
2263525 ATCATAGCTCCAGGCGAGAAGGGCTATCTGTCAAC-CAAGACCTTCGAGTTCGATTACACTCAGC
1 AGCATAACTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGC
* * **
2263589 TCAAAGGCACGTCATTTTAT
66 TCCAAGGCACATCA-TTTGC
* *
2263609 AGTATAACTCAAGGCAAGAAGGGTTATCTGTCAACAAAA
1 AGCATAACTCAAGGCAAGAAGGGTTATCTGCCAACAAAA
2263648 TTGTCGAGTT
Statistics
Matches: 676, Mismatches: 115, Indels: 7
0.85 0.14 0.01
Matches are distributed among these distances:
83 38 0.06
84 635 0.94
85 3 0.00
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (84 bp):
AGCATAACTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGC
TCCAAGGCACATCATTTGC
Found at i:2265435 original size:2 final size:2
Alignment explanation
Indices: 2265428--2265452 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2265418 ATTTTATAAT
2265428 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 T
2265453 TCTATTTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2265503 original size:21 final size:22
Alignment explanation
Indices: 2265455--2265504 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
2265445 ATATATATTC
2265455 TATTTATTTTCTATATTTTTAT
1 TATTTATTTTCTATATTTTTAT
*
2265477 TA-TTATTTTTTA-ATTTTT-T
1 TATTTATTTTCTATATTTTTAT
2265496 TCATTTATT
1 T-ATTTATT
2265505 ACTATTATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 2 0.08
20 7 0.28
21 14 0.56
22 2 0.08
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (22 bp):
TATTTATTTTCTATATTTTTAT
Found at i:2265526 original size:30 final size:26
Alignment explanation
Indices: 2265472--2265530 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 26
2265462 TTTCTATATT
* *
2265472 TTTATTATTATTTTTTAATTTTTTTCA
1 TTTATTACTATTTATTAATTTTTTT-A
2265499 TTTATTACTATTATATTATATTATTTTTA
1 TTTATTACTATT-TATTA-ATT-TTTTTA
2265528 TTT
1 TTT
2265531 TCTTTTTTAC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 11 0.41
28 4 0.15
29 7 0.26
30 5 0.19
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.71
Consensus pattern (26 bp):
TTTATTACTATTTATTAATTTTTTTA
Found at i:2265562 original size:51 final size:54
Alignment explanation
Indices: 2265468--2265588 Score: 151
Period size: 51 Copynumber: 2.3 Consensus size: 54
2265458 TTATTTTCTA
*
2265468 TATTTTTATTATTATTTTTTAATTTTTTTCATTTATTACTATTA-TAT-TATAT
1 TATTTTTATTATTATTTTTTAATTTTTGTCATTTATTACTATTATTATATATAT
* * *
2265520 TATTTTTATT-TTCTTTTTTACTCTTTTGTC-TTTATTATTATTATTATATATAT
1 TATTTTTATTATTATTTTTTAAT-TTTTGTCATTTATTACTATTATTATATATAT
*
2265573 AATTTATTATTATTAT
1 TATTT-TTATTATTAT
2265589 ACATATATAT
Statistics
Matches: 58, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
51 22 0.38
52 19 0.33
53 9 0.16
54 5 0.09
55 3 0.05
ACGTcount: A:0.26, C:0.05, G:0.01, T:0.69
Consensus pattern (54 bp):
TATTTTTATTATTATTTTTTAATTTTTGTCATTTATTACTATTATTATATATAT
Found at i:2265581 original size:22 final size:22
Alignment explanation
Indices: 2265554--2265595 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
2265544 TTTGTCTTTA
*
2265554 TTATTATTATTATATATATAAT
1 TTATTATTATTATACATATAAT
2265576 TTATTATTATTATACATATA
1 TTATTATTATTATACATATA
2265596 TATTACCTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (22 bp):
TTATTATTATTATACATATAAT
Found at i:2265793 original size:33 final size:31
Alignment explanation
Indices: 2265755--2265823 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 31
2265745 TTCTTTACTA
2265755 TTATTTTTTTCTTATCTTACA---TATTTTAT
1 TTATTTTTTTCTTATCTT-CATTTTATTTTAT
2265784 TTATTTATTTTTCTTATCTTCATTTTATTTTAT
1 TTA-TT-TTTTTCTTATCTTCATTTTATTTTAT
2265817 TT-TTTTT
1 TTATTTTT
2265824 CTTTATTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
29 3 0.09
30 7 0.20
31 15 0.43
33 10 0.29
ACGTcount: A:0.17, C:0.09, G:0.00, T:0.74
Consensus pattern (31 bp):
TTATTTTTTTCTTATCTTCATTTTATTTTAT
Found at i:2265809 original size:28 final size:30
Alignment explanation
Indices: 2265758--2265826 Score: 99
Period size: 28 Copynumber: 2.3 Consensus size: 30
2265748 TTTACTATTA
2265758 TTTTTTTCTTATCTTACATATTTTA-TTTAT
1 TTTTTTTCTTATCTTACA-ATTTTATTTTAT
2265788 TTATTTTTCTTATCTT-C-ATTTTATTTTAT
1 TT-TTTTTCTTATCTTACAATTTTATTTTAT
2265817 TTTTTTTCTT
1 TTTTTTTCTT
2265827 TATTTTTGTT
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
28 14 0.38
29 7 0.19
30 3 0.08
31 13 0.35
ACGTcount: A:0.16, C:0.10, G:0.00, T:0.74
Consensus pattern (30 bp):
TTTTTTTCTTATCTTACAATTTTATTTTAT
Found at i:2265833 original size:19 final size:19
Alignment explanation
Indices: 2265807--2266022 Score: 67
Period size: 19 Copynumber: 11.5 Consensus size: 19
2265797 TTATCTTCAT
2265807 TTTA-TTTTATTTTTTTTC
1 TTTATTTTTATTTTTTTTC
* * *
2265825 TTTATTTTTGTTTTGTTTA
1 TTTATTTTTATTTTTTTTC
* ** * *
2265844 TTCATAGTTA-TTTATTTA
1 TTTATTTTTATTTTTTTTC
** *
2265862 TTTA--TCCATTTTTTGTC
1 TTTATTTTTATTTTTTTTC
*
2265879 TTTATCTTTATTTTTTATTTTC
1 TTTAT-TTT-TATTTT-TTTTC
* * *
2265901 TTTATATTTA-TATTTTTA
1 TTTATTTTTATTTTTTTTC
*
2265919 TTTACTTTTTA--TATTTTC
1 TTTA-TTTTTATTTTTTTTC
* *
2265937 TCTA-TTTT-TTTATTTTC
1 TTTATTTTTATTTTTTTTC
* * *
2265954 TTTATCTTGT-TTTATTTAC
1 TTTAT-TTTTATTTTTTTTC
*
2265973 TTTATTTTTTATTTTATTCTC
1 TTTA-TTTTTATTTT-TTTTC
*
2265994 TTTA-TCTTATTTGTTTTTC
1 TTTATTTTTATTT-TTTTTC
2266013 TTTACTTTTT
1 TTTA-TTTTT
2266023 TTCCTAACAC
Statistics
Matches: 142, Mismatches: 38, Indels: 33
0.67 0.18 0.15
Matches are distributed among these distances:
16 5 0.04
17 19 0.13
18 29 0.20
19 57 0.40
20 7 0.05
21 16 0.11
22 9 0.06
ACGTcount: A:0.15, C:0.08, G:0.03, T:0.74
Consensus pattern (19 bp):
TTTATTTTTATTTTTTTTC
Found at i:2265833 original size:24 final size:25
Alignment explanation
Indices: 2265783--2265832 Score: 70
Period size: 23 Copynumber: 2.1 Consensus size: 25
2265773 ACATATTTTA
2265783 TTTA-TTTATTTTTCTTATCTTCAT
1 TTTATTTTATTTTTCTTATCTTCAT
*
2265807 TTTATTTTATTTTT-TT-TCTTTAT
1 TTTATTTTATTTTTCTTATCTTCAT
2265830 TTT
1 TTT
2265833 TGTTTTGTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 9 0.38
24 6 0.25
25 9 0.38
ACGTcount: A:0.14, C:0.08, G:0.00, T:0.78
Consensus pattern (25 bp):
TTTATTTTATTTTTCTTATCTTCAT
Found at i:2265919 original size:53 final size:53
Alignment explanation
Indices: 2265852--2265971 Score: 129
Period size: 53 Copynumber: 2.3 Consensus size: 53
2265842 TATTCATAGT
* * * *
2265852 TATTTATTTATTTATCCATTTTTTGTCTTTATCTTTA-TTTTTTATTTTCTTTA
1 TATTTATTTATTTATCCACTTTTTATATTT-TCTCTATTTTTTTATTTTCTTTA
**
2265905 TATTTATATT-TTTATTTACTTTTTATATTTTCTCTATTTTTTTATTTTCTTTA
1 TATTTAT-TTATTTATCCACTTTTTATATTTTCTCTATTTTTTTATTTTCTTTA
*
2265958 TCTTGT-TTTATTTA
1 TATT-TATTTATTTA
2265972 CTTTATTTTT
Statistics
Matches: 56, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
52 7 0.12
53 46 0.82
54 3 0.05
ACGTcount: A:0.17, C:0.08, G:0.02, T:0.72
Consensus pattern (53 bp):
TATTTATTTATTTATCCACTTTTTATATTTTCTCTATTTTTTTATTTTCTTTA
Found at i:2265920 original size:23 final size:22
Alignment explanation
Indices: 2265877--2265987 Score: 79
Period size: 22 Copynumber: 5.0 Consensus size: 22
2265867 CCATTTTTTG
*
2265877 TCTTTATCTTTATTTTTTATTT
1 TCTTTATATTTATTTTTTATTT
2265899 TCTTTATATTTATATTTTTATTT
1 TCTTTATATTTAT-TTTTTATTT
* *
2265922 ACTTT-T-TATATTTTCTCTATTT
1 TCTTTATATTTATTTT-T-TATTT
* *
2265944 T-TTTAT-TTTCTTTATCTTGTTT
1 TCTTTATATTTATTT-T-TTATTT
* *
2265966 TATTTA-CTTTATTTTTTATTT
1 TCTTTATATTTATTTTTTATTT
2265987 T
1 T
2265988 ATTCTCTTTA
Statistics
Matches: 73, Mismatches: 9, Indels: 15
0.75 0.09 0.15
Matches are distributed among these distances:
20 3 0.04
21 14 0.19
22 30 0.41
23 26 0.36
ACGTcount: A:0.16, C:0.08, G:0.01, T:0.75
Consensus pattern (22 bp):
TCTTTATATTTATTTTTTATTT
Done.