Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002648.1 Hibiscus syriacus cultivar Beakdansim tig00005411_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: 636717
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 4
Found at i:168126 original size:23 final size:23
Alignment explanation
Indices: 168077--168127 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
168067 GTTTTATATT
**
168077 ATATTTTAAAAATATTAATTAGT
1 ATATTTTAAAAATATTAATTAAA
* *
168100 ATATTTTAAATATATTTATTAAA
1 ATATTTTAAAAATATTAATTAAA
168123 ATATT
1 ATATT
168128 ATTAGATTAA
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:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (23 bp):
ATATTTTAAAAATATTAATTAAA
Found at i:168144 original size:35 final size:34
Alignment explanation
Indices: 168076--168149 Score: 89
Period size: 35 Copynumber: 2.1 Consensus size: 34
168066 AGTTTTATAT
*
168076 TATATTTTAAAAATATTAATTAGTATATTTTAAA
1 TATATTTTAAAAATATTAATTAGTATATATTAAA
*
168110 TATATTTATTAAAATATT-ATTAG-ATTAATATTAAA
1 TATATTT-TAAAAATATTAATTAGTA-T-ATATTAAA
168145 TATAT
1 TATAT
168150 AAATAATATT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
33 1 0.03
34 13 0.37
35 21 0.60
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (34 bp):
TATATTTTAAAAATATTAATTAGTATATATTAAA
Found at i:168322 original size:22 final size:23
Alignment explanation
Indices: 168294--168340 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
168284 TTGATTATTT
168294 TATTATAATATTAAAAATA-TAA
1 TATTATAATATTAAAAATATTAA
* *
168316 TATTATATTATTAGAAATATTAA
1 TATTATAATATTAAAAATATTAA
168339 TA
1 TA
168341 AATATATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (23 bp):
TATTATAATATTAAAAATATTAA
Found at i:168345 original size:22 final size:22
Alignment explanation
Indices: 168302--168345 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
168292 TTTATTATAA
*
168302 TATTAAAAATATAATATTATAT
1 TATTAAAAATATAATATAATAT
*
168324 TATTAGAAATATTAATA-AATAT
1 TATTAAAAATA-TAATATAATAT
168346 ATTTTAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
TATTAAAAATATAATATAATAT
Found at i:168370 original size:53 final size:53
Alignment explanation
Indices: 168262--168411 Score: 125
Period size: 53 Copynumber: 2.9 Consensus size: 53
168252 ATAATATCTT
* ** *
168262 ATATTATATTATTATAATATAATTGATTATTTTATTATAATATTAAAAATATA
1 ATATTATATTATTAAAATATAATAAATTATTTTATAATAATATTAAAAATATA
* *
168315 ATATTATATTATTAGAAATATTAATAAATATATTTTA-AAT-ATTTTAATAAT-TA
1 ATATTATATTATTA-AAATA-TAATAAAT-TATTTTATAATAATATTAAAAATATA
* * * *
168368 ATA-TCT-TGATTAAAATGATATTAAAATATTTTAT--TAATATTAAA
1 ATATTATATTATTAAAAT-ATAATAAATTATTTTATAATAATATTAAA
168412 TTCATAAAAT
Statistics
Matches: 79, Mismatches: 12, Indels: 16
0.74 0.11 0.15
Matches are distributed among these distances:
48 1 0.01
49 13 0.16
50 10 0.13
51 6 0.08
52 2 0.03
53 19 0.24
54 13 0.16
55 8 0.10
56 7 0.09
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.49
Consensus pattern (53 bp):
ATATTATATTATTAAAATATAATAAATTATTTTATAATAATATTAAAAATATA
Found at i:168627 original size:42 final size:42
Alignment explanation
Indices: 168571--168658 Score: 142
Period size: 42 Copynumber: 2.1 Consensus size: 42
168561 TTCTTCCAAC
* *
168571 CAAACACTGGAAAATATTTTTCGGAAAACGAATTATGTGAAA
1 CAAACACTGGAAAATATTTTTCGAAAAACGAATTACGTGAAA
168613 CAAACAC-GGAAAAATATTTTTCGAAAAACGAATTACGTGAAA
1 CAAACACTGG-AAAATATTTTTCGAAAAACGAATTACGTGAAA
168655 CAAA
1 CAAA
168659 AATTGGATTT
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
41 2 0.05
42 41 0.95
ACGTcount: A:0.49, C:0.14, G:0.15, T:0.23
Consensus pattern (42 bp):
CAAACACTGGAAAATATTTTTCGAAAAACGAATTACGTGAAA
Found at i:175176 original size:20 final size:20
Alignment explanation
Indices: 175112--175181 Score: 59
Period size: 20 Copynumber: 3.5 Consensus size: 20
175102 TCTTGGGTAC
* *
175112 CGATACTAAGCCCCTCAGTAT
1 CGATACTAA-CCTCTAAGTAT
* * * ** *
175133 TGGTACTAACCTTTGGGTAG
1 CGATACTAACCTCTAAGTAT
175153 CGATACTAACCTCTAAGTAT
1 CGATACTAACCTCTAAGTAT
175173 CGATACTAA
1 CGATACTAA
175182 TGACTTATTG
Statistics
Matches: 36, Mismatches: 13, Indels: 1
0.72 0.26 0.02
Matches are distributed among these distances:
20 29 0.81
21 7 0.19
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (20 bp):
CGATACTAACCTCTAAGTAT
Found at i:188690 original size:30 final size:29
Alignment explanation
Indices: 188652--188742 Score: 119
Period size: 30 Copynumber: 3.0 Consensus size: 29
188642 CCCGAATGAC
*
188652 CTATCCATATGTTTCGAAGAACATAGGTAA
1 CTATCCATATGTCTCGAAG-ACATAGGTAA
* *
188682 CTGTCCATATGTCCCGAAGGACATAGGTAAA
1 CTATCCATATGTCTCGAA-GACATAGGT-AA
188713 CTATCCATATGTCTCGGAAGACATAGGTAA
1 CTATCCATATGTCTC-GAAGACATAGGTAA
188743 TCCTCGACTC
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
30 25 0.47
31 25 0.47
32 3 0.06
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (29 bp):
CTATCCATATGTCTCGAAGACATAGGTAA
Found at i:188723 original size:31 final size:31
Alignment explanation
Indices: 188652--188742 Score: 114
Period size: 31 Copynumber: 3.0 Consensus size: 31
188642 CCCGAATGAC
** *
188652 CTATCCATATGTTTCGAAGAACATAGGT-AA
1 CTATCCATATGTCCCGAAGGACATAGGTAAA
*
188682 CTGTCCATATGTCCCGAAGGACATAGGTAAA
1 CTATCCATATGTCCCGAAGGACATAGGTAAA
*
188713 CTATCCATATGTCTCGGAA-GACATAGGTAA
1 CTATCCATATGTC-CCGAAGGACATAGGTAA
188743 TCCTCGACTC
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
30 24 0.45
31 25 0.47
32 4 0.08
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (31 bp):
CTATCCATATGTCCCGAAGGACATAGGTAAA
Found at i:193757 original size:30 final size:29
Alignment explanation
Indices: 193719--193810 Score: 112
Period size: 30 Copynumber: 3.0 Consensus size: 29
193709 TTCGAATGAC
193719 CTATCCATATGTTCCGAATAACATAGGTAA
1 CTATCCATATGTTCCGAA-AACATAGGTAA
* *
193749 CTGTCCATATGTCCCGAAAGACATAGGTAAA
1 CTATCCATATGTTCCGAAA-ACATAGGT-AA
* *
193780 CTATCCATATGTCTCAGAAGACATAGGTAA
1 CTATCCATATGT-TCCGAAAACATAGGTAA
193810 C
1 C
193811 CCTCGACTCT
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
29 1 0.02
30 27 0.51
31 21 0.40
32 4 0.08
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.26
Consensus pattern (29 bp):
CTATCCATATGTTCCGAAAACATAGGTAA
Found at i:193790 original size:31 final size:31
Alignment explanation
Indices: 193719--193809 Score: 116
Period size: 31 Copynumber: 3.0 Consensus size: 31
193709 TTCGAATGAC
*
193719 CTATCCATATGTTCCGAATA-ACATAGGT-AA
1 CTATCCATATGTCCCGAA-AGACATAGGTAAA
*
193749 CTGTCCATATGTCCCGAAAGACATAGGTAAA
1 CTATCCATATGTCCCGAAAGACATAGGTAAA
*
193780 CTATCCATATGTCTC-AGAAGACATAGGTAA
1 CTATCCATATGTCCCGA-AAGACATAGGTAA
193810 CCCTCGACTC
Statistics
Matches: 54, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
29 1 0.02
30 25 0.46
31 28 0.52
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.26
Consensus pattern (31 bp):
CTATCCATATGTCCCGAAAGACATAGGTAAA
Found at i:195291 original size:17 final size:18
Alignment explanation
Indices: 195259--195292 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
195249 TAATTAAATA
195259 AAATACTAACAAAATATT
1 AAATACTAACAAAATATT
*
195277 AAATA-TAATAAAATAT
1 AAATACTAACAAAATAT
195293 ATGAGAGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (18 bp):
AAATACTAACAAAATATT
Found at i:196242 original size:24 final size:23
Alignment explanation
Indices: 196213--196261 Score: 80
Period size: 24 Copynumber: 2.1 Consensus size: 23
196203 TAAAAAAAAA
*
196213 TATTTAAAATATTATTATTATTTT
1 TATTTAAAATATTAATATT-TTTT
196237 TATTTAAAATATTAATATTTTTT
1 TATTTAAAATATTAATATTTTTT
196260 TA
1 TA
196262 ATAAATCCGG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 6 0.25
24 18 0.75
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (23 bp):
TATTTAAAATATTAATATTTTTT
Found at i:201043 original size:30 final size:30
Alignment explanation
Indices: 201005--201095 Score: 121
Period size: 30 Copynumber: 3.0 Consensus size: 30
200995 CCCGAATGAC
*
201005 CTATCCATATGTTTCGAAGAACATAGGTAA
1 CTATCCATATGTCTCGAAGAACATAGGTAA
* * *
201035 CTGTCCATATGTCCCGAAGGACATAGGTAAA
1 CTATCCATATGTCTCGAAGAACATAGGT-AA
201066 CTATCCATATGTCTCGAA-AGACATAGGTAA
1 CTATCCATATGTCTCGAAGA-ACATAGGTAA
201096 TCCTCGACTC
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
30 26 0.50
31 26 0.50
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (30 bp):
CTATCCATATGTCTCGAAGAACATAGGTAA
Found at i:201076 original size:31 final size:31
Alignment explanation
Indices: 201005--201095 Score: 130
Period size: 31 Copynumber: 3.0 Consensus size: 31
200995 CCCGAATGAC
* *
201005 CTATCCATATGTTTCGAAGAACATAGGT-AA
1 CTATCCATATGTCTCGAAGGACATAGGTAAA
* *
201035 CTGTCCATATGTCCCGAAGGACATAGGTAAA
1 CTATCCATATGTCTCGAAGGACATAGGTAAA
*
201066 CTATCCATATGTCTCGAAAGACATAGGTAA
1 CTATCCATATGTCTCGAAGGACATAGGTAA
201096 TCCTCGACTC
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
30 24 0.45
31 29 0.55
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (31 bp):
CTATCCATATGTCTCGAAGGACATAGGTAAA
Found at i:205735 original size:2 final size:2
Alignment explanation
Indices: 205728--205761 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
205718 CCTCATTACC
205728 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
205762 CTTATAGAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:206160 original size:31 final size:30
Alignment explanation
Indices: 206089--206179 Score: 112
Period size: 30 Copynumber: 3.0 Consensus size: 30
206079 TCTGAATGAC
*
206089 CTATCCATATGTTCCGAATAACATAGGT-AA
1 CTATCCATATGTCCCGAA-AACATAGGTAAA
* *
206119 CTGTCCATATGTCCCGAAGGACATAGGTAAA
1 CTATCCATATGTCCCGAA-AACATAGGTAAA
*
206150 CTATCCATATGTCTCAGAAAACATAGGTAA
1 CTATCCATATGTC-CCGAAAACATAGGTAA
206180 CCCTCGACTC
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
30 24 0.46
31 24 0.46
32 4 0.08
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.26
Consensus pattern (30 bp):
CTATCCATATGTCCCGAAAACATAGGTAAA
Found at i:215146 original size:111 final size:112
Alignment explanation
Indices: 215018--215240 Score: 394
Period size: 112 Copynumber: 2.0 Consensus size: 112
215008 ATTACAAAAA
* *
215018 TTAATTCTTAATCTAATAATCATGCATTAAAT-AAATCAACTAATTATTACTAATAATTCAAATT
1 TTAATTCTTAATATAATAATCATGCATTAAATAAAATCAACTAAATATTACTAATAATTCAAATT
* *
215082 AAATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
66 AAATTAAAACGTTAAAATGTTACCGTATCAACAAAGTGTAGAGATAT
*
215129 TTAATTCTTAATATAATAATCATGCATTAAATAAAATCAACTAAATATTACTAATAATTTAAATT
1 TTAATTCTTAATATAATAATCATGCATTAAATAAAATCAACTAAATATTACTAATAATTCAAATT
215194 AAATTAAAACGTTAAAATGTTACCGTATCAACAAAGTGTAGAGATAT
66 AAATTAAAACGTTAAAATGTTACCGTATCAACAAAGTGTAGAGATAT
215241 ATGATTTCCA
Statistics
Matches: 106, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
111 31 0.29
112 75 0.71
ACGTcount: A:0.46, C:0.11, G:0.08, T:0.35
Consensus pattern (112 bp):
TTAATTCTTAATATAATAATCATGCATTAAATAAAATCAACTAAATATTACTAATAATTCAAATT
AAATTAAAACGTTAAAATGTTACCGTATCAACAAAGTGTAGAGATAT
Found at i:215562 original size:50 final size:50
Alignment explanation
Indices: 215508--215633 Score: 153
Period size: 50 Copynumber: 2.5 Consensus size: 50
215498 AGATACCCAG
* * * * *
215508 GTATAGCGCGGATCAGGGGGCGTGCTATATCAATGTGGCGCCAGATCACC
1 GTATAGCGCGGATCAGGGGGCGCGCTATACCAACGTGACGCCAAATCACC
* ** * *
215558 GTATATCGCGGGGCAGGGGGCGCGCTATACCCACGTGACGCCAAATCAGC
1 GTATAGCGCGGATCAGGGGGCGCGCTATACCAACGTGACGCCAAATCACC
*
215608 GTATAGCGCGGTTCAGGGGGCGCGCT
1 GTATAGCGCGGATCAGGGGGCGCGCT
215634 TTACTGCTAC
Statistics
Matches: 63, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 63 1.00
ACGTcount: A:0.20, C:0.26, G:0.37, T:0.17
Consensus pattern (50 bp):
GTATAGCGCGGATCAGGGGGCGCGCTATACCAACGTGACGCCAAATCACC
Found at i:216657 original size:38 final size:38
Alignment explanation
Indices: 216582--216682 Score: 152
Period size: 38 Copynumber: 2.7 Consensus size: 38
216572 TCTATTTCAT
*
216582 ATATTCGGGTCGGGTCGGGTCGGG-TTTTTTAAGTGTG
1 ATATTCGGGTCGAGTCGGGTCGGGTTTTTTTAAGTGTG
*
216619 ATATTCGAGTCGAGTCGGGTCGGGTTTTTTTAAGTGTG
1 ATATTCGGGTCGAGTCGGGTCGGGTTTTTTTAAGTGTG
*
216657 ATATTCGGGTC-AGGTCGGATCGGGTT
1 ATATTCGGGTCGA-GTCGGGTCGGGTT
216683 CGGGTTTAGG
Statistics
Matches: 58, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
37 23 0.40
38 35 0.60
ACGTcount: A:0.14, C:0.12, G:0.38, T:0.37
Consensus pattern (38 bp):
ATATTCGGGTCGAGTCGGGTCGGGTTTTTTTAAGTGTG
Found at i:217281 original size:16 final size:16
Alignment explanation
Indices: 217260--217316 Score: 62
Period size: 16 Copynumber: 3.6 Consensus size: 16
217250 ATGAAAATGG
*
217260 ATTTCAATTCTTACAA
1 ATTTCAATTCATACAA
* *
217276 ATTTCAATTCATATAG
1 ATTTCAATTCATACAA
*
217292 ATTTCAATTTCA-ACAT
1 ATTTCAA-TTCATACAA
217308 ATTTCAATT
1 ATTTCAATT
217317 ACTTCACAGA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
15 2 0.06
16 29 0.83
17 4 0.11
ACGTcount: A:0.37, C:0.16, G:0.02, T:0.46
Consensus pattern (16 bp):
ATTTCAATTCATACAA
Found at i:219966 original size:13 final size:13
Alignment explanation
Indices: 219941--219979 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
219931 AAAATGTATT
219941 TTAAATAATTTTAA
1 TTAAAT-ATTTTAA
219955 TTAAATATTTTAA
1 TTAAATATTTTAA
* *
219968 ATATATATTTTA
1 TTAAATATTTTA
219980 TAAATTTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 17 0.74
14 6 0.26
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TTAAATATTTTAA
Found at i:221446 original size:24 final size:22
Alignment explanation
Indices: 221418--221461 Score: 70
Period size: 24 Copynumber: 1.9 Consensus size: 22
221408 TTTTGTCTAC
221418 TAAAATTTTATAATATTATCGTCT
1 TAAAATTTTATAA-ATT-TCGTCT
221442 TAAAATTTTATAAATTTCGT
1 TAAAATTTTATAAATTTCGT
221462 ATCAAATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 4 0.20
23 3 0.15
24 13 0.65
ACGTcount: A:0.39, C:0.07, G:0.05, T:0.50
Consensus pattern (22 bp):
TAAAATTTTATAAATTTCGTCT
Found at i:222626 original size:16 final size:16
Alignment explanation
Indices: 222605--222663 Score: 109
Period size: 16 Copynumber: 3.7 Consensus size: 16
222595 TAAGGAATAA
222605 ATAAACGAACACGAAC
1 ATAAACGAACACGAAC
222621 ATAAACGAACACGAAC
1 ATAAACGAACACGAAC
*
222637 ATAAACGAACACGATC
1 ATAAACGAACACGAAC
222653 ATAAACGAACA
1 ATAAACGAACA
222664 TAAACGTTGG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
16 42 1.00
ACGTcount: A:0.56, C:0.24, G:0.12, T:0.08
Consensus pattern (16 bp):
ATAAACGAACACGAAC
Found at i:234072 original size:23 final size:23
Alignment explanation
Indices: 234029--234074 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
234019 TGTAGTCAGG
*
234029 GTTATTATTATCAAATGTTATTT
1 GTTATTATTATCAAATATTATTT
*
234052 GTTATTATTAAT-TAATATTATTT
1 GTTATTATT-ATCAAATATTATTT
234075 ATAACTATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 18 0.90
24 2 0.10
ACGTcount: A:0.33, C:0.02, G:0.07, T:0.59
Consensus pattern (23 bp):
GTTATTATTATCAAATATTATTT
Found at i:235142 original size:17 final size:16
Alignment explanation
Indices: 235102--235147 Score: 74
Period size: 16 Copynumber: 2.8 Consensus size: 16
235092 TTTCGAAATT
235102 AACTCGAACCGAAAGA
1 AACTCGAACCGAAAGA
235118 AACTCGAACCGAAAGA
1 AACTCGAACCGAAAGA
*
235134 AAGCTCGAATCGAA
1 AA-CTCGAACCGAA
235148 TTTTAACCTA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
16 18 0.64
17 10 0.36
ACGTcount: A:0.48, C:0.24, G:0.20, T:0.09
Consensus pattern (16 bp):
AACTCGAACCGAAAGA
Found at i:237316 original size:2 final size:2
Alignment explanation
Indices: 237311--237368 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
237301 TCTCTCTCTC
237311 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
237353 TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA
237369 CATGCTTTTT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:242855 original size:24 final size:24
Alignment explanation
Indices: 242828--242887 Score: 102
Period size: 24 Copynumber: 2.5 Consensus size: 24
242818 AAATGGTATG
*
242828 ATGCCAATGCACAATGCGAATATC
1 ATGCCAATGCACAATGCGAATAAC
242852 ATGCCAATGCACAATGCGAATAAC
1 ATGCCAATGCACAATGCGAATAAC
*
242876 ATGTCAATGCAC
1 ATGCCAATGCAC
242888 CAGGGCACTC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.38, C:0.25, G:0.17, T:0.20
Consensus pattern (24 bp):
ATGCCAATGCACAATGCGAATAAC
Found at i:246336 original size:45 final size:45
Alignment explanation
Indices: 246263--246433 Score: 218
Period size: 45 Copynumber: 3.8 Consensus size: 45
246253 ATTTAATATT
* *
246263 TTACCATTTATTAACCATAAGCTCGTAAGTTTATTTTACCAAAATAC
1 TTACCATTTATT--CCATAAGCTCGTAAGCTTATTTTACCAATATAC
* * * *
246310 TTACCATTTATCCCATAAGCTTGTAAGCTTATCTTACCATTATAC
1 TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATAC
* * * *
246355 TTACCATTTGTTTCATAAGTTCATAAGCTTATTTTACCAATATAC
1 TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATAC
*
246400 TTGCCA-TTATTCCATAAGCTCGTAAGCTTATTTT
1 TTACCATTTATTCCATAAGCTCGTAAGCTTATTTT
246434 TCCAGTTTAT
Statistics
Matches: 105, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
44 24 0.23
45 70 0.67
47 11 0.10
ACGTcount: A:0.30, C:0.20, G:0.08, T:0.42
Consensus pattern (45 bp):
TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATAC
Found at i:248229 original size:56 final size:56
Alignment explanation
Indices: 248152--248268 Score: 216
Period size: 56 Copynumber: 2.1 Consensus size: 56
248142 CCATAATTGA
* *
248152 TATTCTAATGCTATAATAGATCTAACACATGCTTAATAATATATCATATAATTTTT
1 TATTCTAATGCTATAATAGATCTAACACATCCTTAATAATATATCATAGAATTTTT
248208 TATTCTAATGCTATAATAGATCTAACACATCCTTAATAATATATCATAGAATTTTT
1 TATTCTAATGCTATAATAGATCTAACACATCCTTAATAATATATCATAGAATTTTT
248264 TATTC
1 TATTC
248269 AACACCATAG
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 59 1.00
ACGTcount: A:0.38, C:0.14, G:0.05, T:0.43
Consensus pattern (56 bp):
TATTCTAATGCTATAATAGATCTAACACATCCTTAATAATATATCATAGAATTTTT
Found at i:250625 original size:25 final size:26
Alignment explanation
Indices: 250583--250636 Score: 74
Period size: 25 Copynumber: 2.1 Consensus size: 26
250573 CAATTCTATC
*
250583 ATTTTTAAAACTTTTTATTTAATTTA
1 ATTTTTAAAACTTATTATTTAATTTA
* *
250609 ATTTTTATAA-TTATTATTTATTTTA
1 ATTTTTAAAACTTATTATTTAATTTA
250634 ATT
1 ATT
250637 CTTTTCATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
25 16 0.64
26 9 0.36
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (26 bp):
ATTTTTAAAACTTATTATTTAATTTA
Found at i:252872 original size:2 final size:2
Alignment explanation
Indices: 252865--252896 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
252855 AGCATTCTGA
252865 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
252897 CTAGATCGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:256657 original size:20 final size:20
Alignment explanation
Indices: 256628--256701 Score: 87
Period size: 20 Copynumber: 3.6 Consensus size: 20
256618 GCAGCCTTCG
*
256628 TGCATGGATGCACAGTAGGA
1 TGCATCGATGCACAGTAGGA
*
256648 TGCATCGATGCACAGCCT-TGA
1 TGCATCGATGCACAG--TAGGA
*
256669 TGCATCGATGCACAGAAGGA
1 TGCATCGATGCACAGTAGGA
*
256689 TGCATTGATGCAC
1 TGCATCGATGCAC
256702 TAATTGCATT
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
20 28 0.61
21 17 0.37
22 1 0.02
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.22
Consensus pattern (20 bp):
TGCATCGATGCACAGTAGGA
Found at i:256679 original size:41 final size:41
Alignment explanation
Indices: 256619--256701 Score: 123
Period size: 41 Copynumber: 2.0 Consensus size: 41
256609 CTAGCCGTTG
* *
256619 CAGCCTTCGTGCATGGATGCACAGTAGGATGCATCGATGCA
1 CAGCCTTCGTGCATCGATGCACAGAAGGATGCATCGATGCA
*
256660 CAGCCTT-GATGCATCGATGCACAGAAGGATGCATTGATGCA
1 CAGCCTTCG-TGCATCGATGCACAGAAGGATGCATCGATGCA
256701 C
1 C
256702 TAATTGCATT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
40 1 0.03
41 37 0.97
ACGTcount: A:0.27, C:0.24, G:0.28, T:0.22
Consensus pattern (41 bp):
CAGCCTTCGTGCATCGATGCACAGAAGGATGCATCGATGCA
Found at i:256767 original size:22 final size:22
Alignment explanation
Indices: 256740--256800 Score: 104
Period size: 22 Copynumber: 2.8 Consensus size: 22
256730 ATACACTGCA
256740 TGGTGCATCGATGCACTAGTGC
1 TGGTGCATCGATGCACTAGTGC
256762 TGGTGCATCGATGCACTAGTGC
1 TGGTGCATCGATGCACTAGTGC
* *
256784 AGGTGCATGGATGCACT
1 TGGTGCATCGATGCACT
256801 GTAGGGATGC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.20, C:0.21, G:0.33, T:0.26
Consensus pattern (22 bp):
TGGTGCATCGATGCACTAGTGC
Found at i:256795 original size:64 final size:64
Alignment explanation
Indices: 256722--256842 Score: 156
Period size: 64 Copynumber: 1.9 Consensus size: 64
256712 CAGTGTTTGA
* * *
256722 GTGCATGGATACACTGCATGG-TGCATCGATGCACTAGT-GCTGGTGCATCGATGCACTAGTGCA
1 GTGCATGGATACACTGCAGGGATGCATAGATGCACT-GTAG-GGGTGCATCGATGCACTAGTGCA
256785 G
64 G
* * *
256786 GTGCATGGATGCACTGTAGGGATGCATAGATGCACTGTAGGGGTGCATGGATGCACT
1 GTGCATGGATACACTGCAGGGATGCATAGATGCACTGTAGGGGTGCATCGATGCACT
256843 TTGACACCCT
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
64 35 0.71
65 14 0.29
ACGTcount: A:0.22, C:0.19, G:0.34, T:0.25
Consensus pattern (64 bp):
GTGCATGGATACACTGCAGGGATGCATAGATGCACTGTAGGGGTGCATCGATGCACTAGTGCAG
Found at i:256817 original size:21 final size:21
Alignment explanation
Indices: 256787--256842 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
256777 CTAGTGCAGG
256787 TGCATGGATGCACTGTAGGGA
1 TGCATGGATGCACTGTAGGGA
* *
256808 TGCATAGATGCACTGTAGGGG
1 TGCATGGATGCACTGTAGGGA
256829 TGCATGGATGCACT
1 TGCATGGATGCACT
256843 TTGACACCCT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.23, C:0.16, G:0.36, T:0.25
Consensus pattern (21 bp):
TGCATGGATGCACTGTAGGGA
Found at i:256943 original size:29 final size:29
Alignment explanation
Indices: 256922--256979 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
256912 AAACTTTGAA
*
256922 TAAATTCAATT-AAGTCCAAAAACATTTTG
1 TAAATTCAATTCAACTCCAAAAACA-TTTG
256951 TAAATTCAATTCAACTCCAAAAACCATTT
1 TAAATTCAATTCAACTCCAAAAA-CATTT
256980 TGCCTTAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 11 0.42
30 13 0.50
31 2 0.08
ACGTcount: A:0.45, C:0.19, G:0.03, T:0.33
Consensus pattern (29 bp):
TAAATTCAATTCAACTCCAAAAACATTTG
Found at i:256972 original size:30 final size:30
Alignment explanation
Indices: 256922--256981 Score: 95
Period size: 29 Copynumber: 2.0 Consensus size: 30
256912 AAACTTTGAA
*
256922 TAAATTCAATTAAGTCCAAAAA-CATTTTG
1 TAAATTCAATTAACTCCAAAAACCATTTTG
256951 TAAATTCAATTCAACTCCAAAAACCATTTTG
1 TAAATTCAATT-AACTCCAAAAACCATTTTG
256982 CCTTAAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 10 0.36
31 7 0.25
ACGTcount: A:0.43, C:0.18, G:0.05, T:0.33
Consensus pattern (30 bp):
TAAATTCAATTAACTCCAAAAACCATTTTG
Found at i:272693 original size:12 final size:11
Alignment explanation
Indices: 272678--272733 Score: 67
Period size: 12 Copynumber: 4.8 Consensus size: 11
272668 GAAATTTTGG
272678 CTTTTTTTTAC
1 CTTTTTTTTAC
*
272689 TCTTTTTTTGTGC
1 -CTTTTTTT-TAC
272702 CTTTTTTTTAC
1 CTTTTTTTTAC
*
272713 CTTTTTTTTTGC
1 C-TTTTTTTTAC
272725 CTTTTTTTT
1 CTTTTTTTT
272734 GTTTTTTTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
11 11 0.28
12 26 0.67
13 2 0.05
ACGTcount: A:0.04, C:0.16, G:0.05, T:0.75
Consensus pattern (11 bp):
CTTTTTTTTAC
Found at i:272733 original size:23 final size:24
Alignment explanation
Indices: 272672--272746 Score: 100
Period size: 23 Copynumber: 3.2 Consensus size: 24
272662 TTTTTTGAAA
*
272672 TTTTGGCTTTTTTTTACTCTTTTT
1 TTTTGCCTTTTTTTTACTCTTTTT
*
272696 TTGTGCCTTTTTTTTAC-CTTTTT
1 TTTTGCCTTTTTTTTACTCTTTTT
* *
272719 TTTTGCCTTTTTTTT-GTTTTTTT
1 TTTTGCCTTTTTTTTACTCTTTTT
272742 TTTTG
1 TTTTG
272747 AAAAAAAAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
23 30 0.67
24 15 0.33
ACGTcount: A:0.03, C:0.12, G:0.09, T:0.76
Consensus pattern (24 bp):
TTTTGCCTTTTTTTTACTCTTTTT
Found at i:272744 original size:11 final size:11
Alignment explanation
Indices: 272679--272743 Score: 60
Period size: 11 Copynumber: 5.7 Consensus size: 11
272669 AAATTTTGGC
*
272679 TTTTTTTTACT
1 TTTTTTTTGCT
272690 CTTTTTTTGTGCCT
1 -TTTTTTT-TG-CT
**
272704 TTTTTTTACCT
1 TTTTTTTTGCT
*
272715 TTTTTTTTGCC
1 TTTTTTTTGCT
272726 TTTTTTTTG-T
1 TTTTTTTTGCT
272736 TTTTTTTT
1 TTTTTTTT
272744 TTGAAAAAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
10 8 0.18
11 19 0.43
12 7 0.16
13 8 0.18
14 2 0.05
ACGTcount: A:0.03, C:0.12, G:0.06, T:0.78
Consensus pattern (11 bp):
TTTTTTTTGCT
Found at i:277976 original size:10 final size:11
Alignment explanation
Indices: 277935--277991 Score: 52
Period size: 10 Copynumber: 5.5 Consensus size: 11
277925 AGGGCGCTTC
*
277935 AAAACGAAAATG
1 AAAATGAAAA-G
277947 AAAAT-AAAA-
1 AAAATGAAAAG
*
277956 AAAATG-GAAG
1 AAAATGAAAAG
277966 AAAA-GAAAAG
1 AAAATGAAAAG
277976 AAAATGAAAA-
1 AAAATGAAAAG
277986 AAAATG
1 AAAATG
277992 CGTTCGAGAT
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
9 8 0.21
10 17 0.45
11 9 0.24
12 4 0.11
ACGTcount: A:0.74, C:0.02, G:0.16, T:0.09
Consensus pattern (11 bp):
AAAATGAAAAG
Found at i:277988 original size:19 final size:19
Alignment explanation
Indices: 277947--277988 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
277937 AACGAAAATG
* *
277947 AAAATAAAAAAAATGGAAG
1 AAAAGAAAAAAAATGGAAA
277966 AAAAGAAAAGAAAAT-GAAA
1 AAAAGAAAA-AAAATGGAAA
277985 AAAA
1 AAAA
277989 ATGCGTTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.79, C:0.00, G:0.14, T:0.07
Consensus pattern (19 bp):
AAAAGAAAAAAAATGGAAA
Found at i:278035 original size:18 final size:18
Alignment explanation
Indices: 278012--278053 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
278002 GAAAACCCAA
*
278012 AAAGAGTATCTTGAAACC
1 AAAGAGCATCTTGAAACC
278030 AAAGAGCATCTTGAAACC
1 AAAGAGCATCTTGAAACC
278048 AAAGAG
1 AAAGAG
278054 AGGCTTCAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.48, C:0.17, G:0.19, T:0.17
Consensus pattern (18 bp):
AAAGAGCATCTTGAAACC
Found at i:279062 original size:67 final size:69
Alignment explanation
Indices: 278952--279107 Score: 190
Period size: 67 Copynumber: 2.3 Consensus size: 69
278942 TGCAACCTCG
* * ** * *
278952 AGCCTCAATCATAGAGGACATCAATATTCAGTAGGTGAACCCTCAACCATGGCGAAAGCAATACT
1 AGCCTCAGTCATGGAGGACATCAATATTCAGTAGGCAAACCCTCAACCATAGAGAAAGCAATACT
279017 CAAA
66 CAAA
** * *
279021 AGCCTCAGTCATGGAGGAC-TCCTTA-TCAGTAGGCAAACCCTCAACCATAGAGGAAGCCATACT
1 AGCCTCAGTCATGGAGGACATCAATATTCAGTAGGCAAACCCTCAACCATAGAGAAAGCAATACT
*
279084 CAAG
66 CAAA
*
279088 AGCCTTAGTCATGGAGGACA
1 AGCCTCAGTCATGGAGGACA
279108 CCTCATTAGT
Statistics
Matches: 74, Mismatches: 12, Indels: 3
0.83 0.13 0.03
Matches are distributed among these distances:
67 53 0.72
68 4 0.05
69 17 0.23
ACGTcount: A:0.35, C:0.26, G:0.21, T:0.19
Consensus pattern (69 bp):
AGCCTCAGTCATGGAGGACATCAATATTCAGTAGGCAAACCCTCAACCATAGAGAAAGCAATACT
CAAA
Found at i:279127 original size:67 final size:67
Alignment explanation
Indices: 278979--279129 Score: 194
Period size: 67 Copynumber: 2.3 Consensus size: 67
278969 ACATCAATAT
* * *
278979 TCAGTAGGTGAACCCTCAACCATGGCGAAAGCAATACTCAAAAGCCTCAGTCATGGAGGACTCCT
1 TCAGTAGGTGAACCCTCAACCATAGAGAAAGCAATACTCAAAAGCCTCAGTCATGGAGGACACCT
*
279044 TA
66 CA
** * * * *
279046 TCAGTAGGCAAACCCTCAACCATAGAGGAAGCCATACTCAAGAGCCTTAGTCATGGAGGACACCT
1 TCAGTAGGTGAACCCTCAACCATAGAGAAAGCAATACTCAAAAGCCTCAGTCATGGAGGACACCT
279111 CA
66 CA
* *
279113 TTAGTATGTGAACCCTC
1 TCAGTAGGTGAACCCTC
279130 GGTCATGGAG
Statistics
Matches: 70, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
67 70 1.00
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (67 bp):
TCAGTAGGTGAACCCTCAACCATAGAGAAAGCAATACTCAAAAGCCTCAGTCATGGAGGACACCT
CA
Found at i:279173 original size:71 final size:71
Alignment explanation
Indices: 279088--279348 Score: 258
Period size: 71 Copynumber: 3.7 Consensus size: 71
279078 CATACTCAAG
* * * * *
279088 AGCCTTAGTCATGGAGGACACCTCATTAGTATGTGAACCCTCGGTCATGGAGGAAATCGAACACA
1 AGCCTCAGTCATGGAGGACACCCCATTAGTATGTGAACCCTCAGCCATGGAGGAAATTGAACACA
**
279153 ACCTTG
66 ACCTCA
* * * * *
279159 AGCCTCATTCATGGAGGACACCCCGTTAGTA-GATGAACCCTTAGCCATGG-GGACATTGAGCAC
1 AGCCTCAGTCATGGAGGACACCCCATTAGTATG-TGAACCCTCAGCCATGGAGGAAATTGAACAC
*
279222 ATCCTCA
65 AACCTCA
* ** * * * *
279229 AGCCTCAGTCATGGAGGACACCCCACTAGTAAATGAACACTCAGCCATGGAGGAAGTTGAACGCT
1 AGCCTCAGTCATGGAGGACACCCCATTAGTATGTGAACCCTCAGCCATGGAGGAAATTGAACACA
*
279294 ACCCCA
66 ACCTCA
* * * *
279300 AGACTCAGTCATGGAGGA-AACCCATTTAATATGTGAACCCTCAACCATG
1 AGCCTCAGTCATGGAGGACACCCCA-TTAGTATGTGAACCCTCAGCCATG
279349 AAGAAAGTAG
Statistics
Matches: 152, Mismatches: 34, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
70 63 0.41
71 89 0.59
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.20
Consensus pattern (71 bp):
AGCCTCAGTCATGGAGGACACCCCATTAGTATGTGAACCCTCAGCCATGGAGGAAATTGAACACA
ACCTCA
Found at i:279348 original size:141 final size:141
Alignment explanation
Indices: 279088--279348 Score: 299
Period size: 141 Copynumber: 1.9 Consensus size: 141
279078 CATACTCAAG
* * * ** * * *
279088 AGCCTTAGTCATGGAGGACACCTCATTAGTATGTGAACCCTCGGTCATGGAGGAAATCGAACACA
1 AGCCTCAGTCATGGAGGACACCCCACTAGTAAATGAACACTCAGCCATGGAGGAAATCGAACACA
*** * * * * * * *
279153 ACCTTGAGCCTCATTCATGGAGGACACCCCGTTAGTAGATGAACCCTTAGCCATGGGGACATTGA
66 ACCCCAAGACTCAGTCATGGAGGAAACCCAGTTAATAGATGAACCCTCAACCATGGGGACATTGA
279218 GCACATCCTCA
131 GCACATCCTCA
* * * *
279229 AGCCTCAGTCATGGAGGACACCCCACTAGTAAATGAACACTCAGCCATGGAGGAAGTTGAACGCT
1 AGCCTCAGTCATGGAGGACACCCCACTAGTAAATGAACACTCAGCCATGGAGGAAATCGAACACA
*
279294 ACCCCAAGACTCAGTCATGGAGGAAACCCATTTAATATG-TGAACCCTCAACCATG
66 ACCCCAAGACTCAGTCATGGAGGAAACCCAGTTAATA-GATGAACCCTCAACCATG
279349 AAGAAAGTAG
Statistics
Matches: 96, Mismatches: 23, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
141 95 0.99
142 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.20
Consensus pattern (141 bp):
AGCCTCAGTCATGGAGGACACCCCACTAGTAAATGAACACTCAGCCATGGAGGAAATCGAACACA
ACCCCAAGACTCAGTCATGGAGGAAACCCAGTTAATAGATGAACCCTCAACCATGGGGACATTGA
GCACATCCTCA
Found at i:279420 original size:17 final size:17
Alignment explanation
Indices: 279398--279431 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
279388 GGACAACAAG
279398 GTTGAACAGGTGAACCC
1 GTTGAACAGGTGAACCC
279415 GTTGAACAGGTGAACCC
1 GTTGAACAGGTGAACCC
279432 TTGGTCATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.24, G:0.29, T:0.18
Consensus pattern (17 bp):
GTTGAACAGGTGAACCC
Found at i:279592 original size:3 final size:3
Alignment explanation
Indices: 279584--279685 Score: 64
Period size: 3 Copynumber: 32.3 Consensus size: 3
279574 TTTCATCCGG
* *
279584 ATT ATT ATT ATT AAAT ATT ATT -TT -TT ATT ATT AATT AAT ATT ATT
1 ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT
* * * *
279629 AATT AATT AAT ATT GTT AAT ATT ATTT ATT AAT ATT ACTT ATT ACTT
1 -ATT -ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT A-TT ATT A-TT
*
279676 ATT AAT ATT A
1 ATT ATT ATT A
279686 CTAAGATTAA
Statistics
Matches: 78, Mismatches: 14, Indels: 14
0.74 0.13 0.13
Matches are distributed among these distances:
2 4 0.05
3 53 0.68
4 21 0.27
ACGTcount: A:0.39, C:0.02, G:0.01, T:0.58
Consensus pattern (3 bp):
ATT
Found at i:279611 original size:23 final size:23
Alignment explanation
Indices: 279585--279628 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
279575 TTCATCCGGA
279585 TTATTATT-ATTAAATATTATTTT
1 TTATTATTAATT-AATATTATTTT
279608 TTATTATTAATTAATATTATT
1 TTATTATTAATTAATATTATT
279629 AATTAATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 17 0.85
24 3 0.15
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (23 bp):
TTATTATTAATTAATATTATTTT
Found at i:279633 original size:17 final size:17
Alignment explanation
Indices: 279608--279648 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
279598 ATATTATTTT
279608 TTATT-ATTAATTAATA
1 TTATTAATTAATTAATA
279624 TTATTAATTAATTAATA
1 TTATTAATTAATTAATA
*
279641 TTGTTAAT
1 TTATTAAT
279649 ATTATTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 5 0.22
17 18 0.78
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (17 bp):
TTATTAATTAATTAATA
Found at i:279685 original size:20 final size:19
Alignment explanation
Indices: 279585--279687 Score: 82
Period size: 20 Copynumber: 5.1 Consensus size: 19
279575 TTCATCCGGA
*
279585 TTATTATTATTAAATATTAT
1 TTATTATTATT-AATATTAC
* *
279605 TTTTTATTATTAATTAATA-
1 TTATTATTATTAA-TATTAC
**
279624 TTATTAATTAATTAATATTGT
1 TTATT-ATT-ATTAATATTAC
279645 TAATATTATTTATTAATATTAC
1 T--TATTA-TTATTAATATTAC
279667 TTATTACTTATTAATATTAC
1 TTATTA-TTATTAATATTAC
279687 T
1 T
279688 AAGATTAAAA
Statistics
Matches: 68, Mismatches: 8, Indels: 14
0.76 0.09 0.16
Matches are distributed among these distances:
19 6 0.09
20 39 0.57
21 6 0.09
22 11 0.16
23 6 0.09
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.58
Consensus pattern (19 bp):
TTATTATTATTAATATTAC
Found at i:279687 original size:13 final size:12
Alignment explanation
Indices: 279586--279672 Score: 79
Period size: 13 Copynumber: 6.9 Consensus size: 12
279576 TCATCCGGAT
279586 TATTATTATTAAA
1 TATTATTATT-AA
*
279599 TATTATT-TT-T
1 TATTATTATTAA
279609 TATTATTAATTAA
1 TATTATT-ATTAA
279622 TATTATTAATTAA
1 TATTATT-ATTAA
* *
279635 TTAATATTGTTAA
1 -TATTATTATTAA
279648 TATTATTTATTAA
1 TATTA-TTATTAA
279661 TATTACTTATTA
1 TATTA-TTATTA
279673 CTTATTAATA
Statistics
Matches: 62, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
10 7 0.11
12 8 0.13
13 41 0.66
14 6 0.10
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.59
Consensus pattern (12 bp):
TATTATTATTAA
Found at i:281975 original size:22 final size:22
Alignment explanation
Indices: 281947--281989 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
281937 ACATTAGTAT
*
281947 TTTTAGAATCTAGAATGGTTAG
1 TTTTAGAATCTAGAAAGGTTAG
281969 TTTTAGAATCTAGAAAGGTTA
1 TTTTAGAATCTAGAAAGGTTA
281990 ATGAACCCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.35, C:0.05, G:0.21, T:0.40
Consensus pattern (22 bp):
TTTTAGAATCTAGAAAGGTTAG
Found at i:286705 original size:18 final size:18
Alignment explanation
Indices: 286673--286707 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
286663 TACTATACTA
*
286673 CATGGTATTGATACCATG
1 CATGGTATCGATACCATG
*
286691 CATGGTATCGGTACCAT
1 CATGGTATCGATACCAT
286708 TTTTCAGGTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (18 bp):
CATGGTATCGATACCATG
Found at i:292539 original size:18 final size:18
Alignment explanation
Indices: 292496--292535 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
292486 CAAGTCTGAG
* *
292496 TGCATCGATGCATGACAG
1 TGCATCGATGCATGAAAA
292514 TGCATCGATGCAT-AAAA
1 TGCATCGATGCATGAAAA
292531 TGCAT
1 TGCAT
292536 TCGAAATGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.25
Consensus pattern (18 bp):
TGCATCGATGCATGAAAA
Found at i:295255 original size:45 final size:44
Alignment explanation
Indices: 295159--295256 Score: 112
Period size: 45 Copynumber: 2.2 Consensus size: 44
295149 GGCATTGTGC
* *
295159 ATCGATGCACATTCAAGGAGTGCCTCAGTGCATCTTCATGATGT
1 ATCGATGCACATTCAAGGAGTGCATCAATGCATCTTCATGATGT
*
295203 ATGGATGCACATTCAAAGG-GATGCATCAATGCA-CATTCAT-AGTGT
1 ATCGATGCACATTC-AAGGAG-TGCATCAATGCATC-TTCATGA-TGT
295248 ATCGATGCA
1 ATCGATGCA
295257 TTATGCACAA
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
44 16 0.35
45 30 0.65
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (44 bp):
ATCGATGCACATTCAAGGAGTGCATCAATGCATCTTCATGATGT
Found at i:299099 original size:22 final size:21
Alignment explanation
Indices: 299057--299096 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
299047 AAGACTGTTT
299057 TCATTTTTCAATTTTGAAATA
1 TCATTTTTCAATTTTGAAATA
**
299078 TCATTTTTGTATTTTGAAA
1 TCATTTTTCAATTTTGAAA
299097 ATAGAGCTTT
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:0.30, C:0.07, G:0.07, T:0.55
Consensus pattern (21 bp):
TCATTTTTCAATTTTGAAATA
Found at i:309864 original size:381 final size:383
Alignment explanation
Indices: 309294--310063 Score: 1435
Period size: 381 Copynumber: 2.0 Consensus size: 383
309284 TTTATATTCT
309294 ATATGTTGTGTGTTAAACTAATTAGGGGTCATGGCCCAATGGTTTGATTGTTGAAGATTTTCCCA
1 ATATGTTGTGTGTTAAACTAATTAGGGGTCATGGCCCAATGGTTTGATTGTTGAAGATTTTCCCA
309359 AAGACATTGGATTTATCCATCCATCCCTTTCGAGTGAATCTTTTTTCTAATACTAATTTCCATCC
66 AAGACATTGGATTTATCCATCCATCCCTTTCGAGTGAATCTTTTTTCTAATACTAATTTCCATCC
309424 AATCTAATGGTGACACGTGTCACCATTTGATTGGGTGGAAAATAAAATATTTAAATTTAAAAAAT
131 AATCTAATGGTGACACGTGTCACCATTTGATTGGGTGGAAAATAAAATATTTAAATTTAAAAAAT
309489 ACCATCATTCATGTTG-AACACTTGTCATAATATGATTAGATGATTAAA-TTATTAAATT-ATTA
196 ACCATCATTCATGTTGTAACACTTGTCATAATATGATTAGATGATTAAATTTATTAAATTAATTA
309551 AAATT-ATC-AATTAATAGAATGTATAAGTATTGAGGACTAAATGTA-AATTATGTCAATTTCGT
261 AAATTGATCAAATTAATAGAATGTATAAGTATTGAGGACTAAATGTAGAATTATGTCAATTTCGT
309613 TAACTATCACCTCAACATTTCCATGTTAACGGAAAGTGGTTTGATTGACAAACAATTAA
326 TAACTATCACCTCAACATTTCCATGTTAACGGAAAGTGGTTTGATTGAC-AACAATTAA
309672 ATATGTTGTGTGTTAAAACTAATTAGGGGTCATGGCCCAATGGTTTGATTGTTGAAGATTTTCCC
1 ATATGTTGTGTGTT-AAACTAATTAGGGGTCATGGCCCAATGGTTTGATTGTTGAAGATTTTCCC
309737 AAAGACATTGGATTTATCCCATCCATCCCTTTCGAGTGAATCTTTTTTCTAATACTAATTTTCCA
65 AAAGACATTGGATTTAT-CCATCCATCCCTTTCGAGTGAATCTTTTTTCTAATACTAA-TTTCCA
309802 TCCAATCTAATGGTGACACGTGTCACCATTTGATTGGGTGGAAAATAAAATATTTAAATTTAAAA
128 TCCAATCTAATGGTGACACGTGTCACCATTTGATTGGGTGGAAAATAAAATATTTAAATTTAAAA
309867 AATACCATCATTCATGTTGTAACACTTGTCATAATATGATTAGATGATTAAATTTATTAAATTAA
193 AATACCATCATTCATGTTGTAACACTTGTCATAATATGATTAGATGATTAAATTTATTAAATT-A
309932 ATTAAAATTAGGATCAAATTAATAGAATGTATAAGTATTGAGGACTAAATGTAGAATTATGTCAA
257 ATTAAAATT--GATCAAATTAATAGAATGTATAAGTATTGAGGACTAAATGTAGAATTATGTCAA
309997 TTTCGTTAACTATCACCTCAACATTTCCATGTTAACGGAAAGTGGTTTGATTGACAACAATTAA
320 TTTCGTTAACTATCACCTCAACATTTCCATGTTAACGGAAAGTGGTTTGATTGACAACAATTAA
310061 ATA
1 ATA
310064 ATCAGGTGGT
Statistics
Matches: 380, Mismatches: 0, Indels: 13
0.97 0.00 0.03
Matches are distributed among these distances:
378 14 0.04
379 67 0.18
380 40 0.11
381 90 0.24
382 32 0.08
383 10 0.03
385 9 0.02
388 3 0.01
389 49 0.13
390 66 0.17
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.36
Consensus pattern (383 bp):
ATATGTTGTGTGTTAAACTAATTAGGGGTCATGGCCCAATGGTTTGATTGTTGAAGATTTTCCCA
AAGACATTGGATTTATCCATCCATCCCTTTCGAGTGAATCTTTTTTCTAATACTAATTTCCATCC
AATCTAATGGTGACACGTGTCACCATTTGATTGGGTGGAAAATAAAATATTTAAATTTAAAAAAT
ACCATCATTCATGTTGTAACACTTGTCATAATATGATTAGATGATTAAATTTATTAAATTAATTA
AAATTGATCAAATTAATAGAATGTATAAGTATTGAGGACTAAATGTAGAATTATGTCAATTTCGT
TAACTATCACCTCAACATTTCCATGTTAACGGAAAGTGGTTTGATTGACAACAATTAA
Found at i:312296 original size:15 final size:15
Alignment explanation
Indices: 312276--312305 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
312266 TTACCGGAAA
312276 TGTTAAAAAATTGAT
1 TGTTAAAAAATTGAT
312291 TGTTAAAAAATTGAT
1 TGTTAAAAAATTGAT
312306 GTTTTAGGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.13, T:0.40
Consensus pattern (15 bp):
TGTTAAAAAATTGAT
Found at i:312308 original size:14 final size:14
Alignment explanation
Indices: 312275--312308 Score: 59
Period size: 15 Copynumber: 2.4 Consensus size: 14
312265 TTTACCGGAA
312275 ATGTTAAAAAATTG
1 ATGTTAAAAAATTG
312289 ATTGTTAAAAAATTG
1 A-TGTTAAAAAATTG
312304 ATGTT
1 ATGTT
312309 TTAGGTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.41
Consensus pattern (14 bp):
ATGTTAAAAAATTG
Found at i:312520 original size:16 final size:17
Alignment explanation
Indices: 312497--312550 Score: 60
Period size: 17 Copynumber: 3.3 Consensus size: 17
312487 TAATTTATTT
312497 TATAATTATATA-T-AA
1 TATAATTATATATTAAA
312512 TATTAATTA-ATATTAAA
1 TA-TAATTATATATTAAA
* *
312529 TATAATTATAAAATAAA
1 TATAATTATATATTAAA
312546 TATAA
1 TATAA
312551 CTAACTTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
15 5 0.15
16 13 0.39
17 15 0.45
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TATAATTATATATTAAA
Found at i:315882 original size:2 final size:2
Alignment explanation
Indices: 315875--315915 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
315865 ACTCATATGA
315875 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
315916 GTTTATTCTA
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:320596 original size:21 final size:21
Alignment explanation
Indices: 320572--320639 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
320562 TAAACTTAAG
320572 TTAGAGTTTAAAGTTTATGAT
1 TTAGAGTTTAAAGTTTATGAT
* * *
320593 TTAGAAG-TTACATGGTTATGTT
1 TTAG-AGTTTA-AAGTTTATGAT
* * *
320615 TTAGGGTTTAAGGTTTATAAT
1 TTAGAGTTTAAAGTTTATGAT
320636 TTAG
1 TTAG
320640 TATTTTAAGT
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
21 19 0.53
22 17 0.47
ACGTcount: A:0.29, C:0.01, G:0.22, T:0.47
Consensus pattern (21 bp):
TTAGAGTTTAAAGTTTATGAT
Found at i:322211 original size:17 final size:17
Alignment explanation
Indices: 322189--322222 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
322179 TACAATTAAT
322189 TAAATAATATCTAATTA
1 TAAATAATATCTAATTA
322206 TAAATAATATCTAATTA
1 TAAATAATATCTAATTA
322223 ATTTGATTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (17 bp):
TAAATAATATCTAATTA
Found at i:324918 original size:218 final size:218
Alignment explanation
Indices: 324540--324976 Score: 808
Period size: 218 Copynumber: 2.0 Consensus size: 218
324530 CATTTTCATG
**
324540 GTGAAATTCTTGTTTGTTTTAGTTATAATGGTTTAAAGCCTATATTATGATCCTTATTGATCAAA
1 GTGAAATTCTTGTTTGTTAGAGTTATAATGGTTTAAAGCCTATATTATGATCCTTATTGATCAAA
324605 TAAAACTTTAAGCATGTTTGGGGACCTCTCTAGGGTCTTGGGATTGAAATATAGTATTTTCGTAT
66 TAAAACTTTAAGCATGTTTGGGGACCTCTCTAGGGTCTTGGGATTGAAATATAGTATTTTCGTAT
324670 GTGTTTATGACTTCTGTAGGTAGAGTATTGATACTATAGAGATAGTATCGATACTTTCTTCGTTT
131 GTGTTTATGACTTCTGTAGGTAGAGTATTGATACTATAGAGATAGTATCGATACTTTCTTCGTTT
324735 TGGGCAAATTCGTGAGTTTCTCA
196 TGGGCAAATTCGTGAGTTTCTCA
324758 GTGAAATTCTTG-TT-TTAGAGTTATAAATGTGTTTAAAGCCTATATTATGATCCTTATTGATC-
1 GTGAAATTCTTGTTTGTTAGAGTTAT-AATG-GTTTAAAGCCTATATTATGATCCTTATTGATCA
324820 AATAAAACTTTAAGCATGTTTGGGGACCTCTCTAGGGTCTTTGGGATTGAAATATAGTATTTTCG
64 AATAAAACTTTAAGCATGTTTGGGGACCTCTCTAGGGTC-TTGGGATTGAAATATAGTATTTTCG
324885 TATGTGTTTATGACTTCTGTAGGTAGAGTATTGATACTATAGAGATAGTATCGATACTTTCTTCG
128 TATGTGTTTATGACTTCTGTAGGTAGAGTATTGATACTATAGAGATAGTATCGATACTTTCTTCG
324950 TTTTGGGCAAATTCGTGAGTTTCTCA
193 TTTTGGGCAAATTCGTGAGTTTCTCA
324976 G
1 G
324977 CAAGAGTATC
Statistics
Matches: 214, Mismatches: 2, Indels: 6
0.96 0.01 0.03
Matches are distributed among these distances:
216 8 0.04
217 45 0.21
218 161 0.75
ACGTcount: A:0.26, C:0.11, G:0.21, T:0.41
Consensus pattern (218 bp):
GTGAAATTCTTGTTTGTTAGAGTTATAATGGTTTAAAGCCTATATTATGATCCTTATTGATCAAA
TAAAACTTTAAGCATGTTTGGGGACCTCTCTAGGGTCTTGGGATTGAAATATAGTATTTTCGTAT
GTGTTTATGACTTCTGTAGGTAGAGTATTGATACTATAGAGATAGTATCGATACTTTCTTCGTTT
TGGGCAAATTCGTGAGTTTCTCA
Found at i:325080 original size:20 final size:19
Alignment explanation
Indices: 325022--325071 Score: 100
Period size: 19 Copynumber: 2.6 Consensus size: 19
325012 TTTGAGTCAT
325022 AGTTTCAAAACTCCCAGAA
1 AGTTTCAAAACTCCCAGAA
325041 AGTTTCAAAACTCCCAGAA
1 AGTTTCAAAACTCCCAGAA
325060 AGTTTCAAAACT
1 AGTTTCAAAACT
325072 GAGCAGAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.42, C:0.24, G:0.10, T:0.24
Consensus pattern (19 bp):
AGTTTCAAAACTCCCAGAA
Found at i:335264 original size:2 final size:2
Alignment explanation
Indices: 335257--335361 Score: 203
Period size: 2 Copynumber: 53.0 Consensus size: 2
335247 TAAAATTGCC
335257 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
335299 AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
335340 AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
335362 TGAGCCGCTG
Statistics
Matches: 102, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
1 1 0.01
2 101 0.99
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:340776 original size:2 final size:2
Alignment explanation
Indices: 340764--340799 Score: 63
Period size: 2 Copynumber: 17.5 Consensus size: 2
340754 TATTCAAATC
340764 AT AT CAT 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 A
340800 ATTATTATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 31 0.94
3 2 0.06
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:344156 original size:13 final size:13
Alignment explanation
Indices: 344140--344187 Score: 69
Period size: 13 Copynumber: 3.7 Consensus size: 13
344130 TGCGCCATAA
*
344140 ATTTATGCCACGC
1 ATTTATGACACGC
344153 ATTTATGACACGC
1 ATTTATGACACGC
**
344166 ATTTATGACGTGC
1 ATTTATGACACGC
344179 ATTTATGAC
1 ATTTATGAC
344188 GCTCATTGCG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 32 1.00
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (13 bp):
ATTTATGACACGC
Found at i:344188 original size:13 final size:13
Alignment explanation
Indices: 344140--344194 Score: 65
Period size: 13 Copynumber: 4.2 Consensus size: 13
344130 TGCGCCATAA
* *
344140 ATTTATGCCACGC
1 ATTTATGACGCGC
*
344153 ATTTATGACACGC
1 ATTTATGACGCGC
*
344166 ATTTATGACGTGC
1 ATTTATGACGCGC
*
344179 ATTTATGACGCTC
1 ATTTATGACGCGC
344192 ATT
1 ATT
344195 GCGCATCATT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 37 1.00
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.36
Consensus pattern (13 bp):
ATTTATGACGCGC
Found at i:346766 original size:152 final size:154
Alignment explanation
Indices: 346490--346795 Score: 598
Period size: 152 Copynumber: 2.0 Consensus size: 154
346480 CATAATGATC
346490 CTGTTTATATACAGCAGCCTGGGAAGAAGAAGGAAATACATCGATCAATAGATTAATTTGAACAA
1 CTGTTTATATACAGCAGCCTGGGAAGAAGAAGGAAATACATCGATCAATAGATTAATTTGAACAA
346555 GATCTGGCAGAAAAAACTATTGGGCCATTATTAATTGATTTTCAACTATATCTTTCTATAATAGC
66 GATCTGGCAGAAAAAACTATTGGGCCATTATTAATTGATTTTCAACTATATCTTTCTATAATAGC
346620 CTGAGCACA-TTTG-TCTCGAGAA
131 CTGAGCACATTTTGTTCTCGAGAA
346642 CTGTTTATATACAGCAGCCTGGGAAGAAGAAGGAAATACATCGATCAATAGATTAATTTGAACAA
1 CTGTTTATATACAGCAGCCTGGGAAGAAGAAGGAAATACATCGATCAATAGATTAATTTGAACAA
346707 GATCTGGCAGAAAAAACTATTGGGCCATTATTAATTGATTTTCAACTATATCTTTCTATAATAGC
66 GATCTGGCAGAAAAAACTATTGGGCCATTATTAATTGATTTTCAACTATATCTTTCTATAATAGC
346772 CTGAGCACATTTTGTTCTCGAGAA
131 CTGAGCACATTTTGTTCTCGAGAA
346796 AAGTCTTAAG
Statistics
Matches: 152, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
152 139 0.91
153 4 0.03
154 9 0.06
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.31
Consensus pattern (154 bp):
CTGTTTATATACAGCAGCCTGGGAAGAAGAAGGAAATACATCGATCAATAGATTAATTTGAACAA
GATCTGGCAGAAAAAACTATTGGGCCATTATTAATTGATTTTCAACTATATCTTTCTATAATAGC
CTGAGCACATTTTGTTCTCGAGAA
Found at i:348062 original size:64 final size:63
Alignment explanation
Indices: 347993--348149 Score: 167
Period size: 64 Copynumber: 2.5 Consensus size: 63
347983 TAATGAAGGT
* **
347993 ATGCATCGATGCACTACTTGTGCATCGGTGCA-TAAAATGCATTCGAT-GTTTTATTATTAATGG
1 ATGCATCGATGCACTACTTGTGCATCGATGCACT-AAATGCATTCGATCGTTTTATT-TTAA-AA
348056 G
63 G
* * * *
348057 ATGCATCGATGCA-TGCCTTATGCATCGATGCACTAATTGCATTCGATCTTTTTATTTTAAAAG
1 ATGCATCGATGCACT-ACTTGTGCATCGATGCACTAAATGCATTCGATCGTTTTATTTTAAAAG
**
348120 AGTGCATCGATGCACTACCAGTGCATCGAT
1 A-TGCATCGATGCACTACTTGTGCATCGAT
348150 ACACCTTCAA
Statistics
Matches: 77, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
63 3 0.04
64 65 0.84
65 9 0.12
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (63 bp):
ATGCATCGATGCACTACTTGTGCATCGATGCACTAAATGCATTCGATCGTTTTATTTTAAAAG
Found at i:354358 original size:15 final size:15
Alignment explanation
Indices: 354334--354364 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
354324 CCGTAGGACC
354334 ACTACATCCCGAAGG
1 ACTACATCCCGAAGG
*
354349 ACTACGTCCCGAAGG
1 ACTACATCCCGAAGG
354364 A
1 A
354365 ATATTATACC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.32, C:0.32, G:0.23, T:0.13
Consensus pattern (15 bp):
ACTACATCCCGAAGG
Found at i:354494 original size:29 final size:29
Alignment explanation
Indices: 354452--354532 Score: 146
Period size: 29 Copynumber: 2.8 Consensus size: 29
354442 TTTTATATGT
354452 TCATGTA-CTCATGTCATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
354480 TCATGTAGCTCATGTCATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
354509 TCATGTAGCTCATGTCATGTTCTC
1 TCATGTAGCTCATGTCAT-TTCTC
354533 ATATCACATA
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
28 7 0.14
29 39 0.76
30 5 0.10
ACGTcount: A:0.17, C:0.22, G:0.16, T:0.44
Consensus pattern (29 bp):
TCATGTAGCTCATGTCATTTCTCTTGTGA
Found at i:354976 original size:64 final size:63
Alignment explanation
Indices: 354907--355051 Score: 159
Period size: 64 Copynumber: 2.3 Consensus size: 63
354897 TAATGAAGGT
* * **
354907 ATGCATCGATGCACTACTTGTGCATCGGTGCA-TAAAATGCATTCGAT-GTTTTATTATTAATGG
1 ATGCATCGATGCACTACTTATGCATCGATGCACT-AAATGCATTCGATCGTTTTATT-TTAA-AA
354970 G
63 G
* * * * *
354971 ATGCATCGATGTATTCCTTATGCATCGATGCACTAATTGCATTCGATCTTTTTATTTTAAAAG
1 ATGCATCGATGCACTACTTATGCATCGATGCACTAAATGCATTCGATCGTTTTATTTTAAAAG
355034 AGTGCATCGATGCACTAC
1 A-TGCATCGATGCACTAC
355052 CAGTGCATAG
Statistics
Matches: 66, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
63 2 0.03
64 56 0.85
65 8 0.12
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.37
Consensus pattern (63 bp):
ATGCATCGATGCACTACTTATGCATCGATGCACTAAATGCATTCGATCGTTTTATTTTAAAAG
Found at i:358845 original size:31 final size:31
Alignment explanation
Indices: 358807--359024 Score: 366
Period size: 31 Copynumber: 7.0 Consensus size: 31
358797 AGGGTCGAGG
*
358807 GTTTACCTATGTTCTTCAGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
358838 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
358869 GTTTACCTATGTTCTTCGGGACATATGGATT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
358900 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
358931 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
358962 GTTTACCTATGTTCTTCGGGATATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* * *
358993 GATTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
359024 G
1 G
359025 GTCCTTCGGG
Statistics
Matches: 178, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
31 178 1.00
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.39
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:362839 original size:20 final size:19
Alignment explanation
Indices: 362800--362836 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
362790 CAGTATGTTC
362800 AGGGGGTATCGATTCCCCT
1 AGGGGGTATCGATTCCCCT
362819 AGGGGGTATCGATTCCCC
1 AGGGGGTATCGATTCCCC
362837 CTAAATGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.16, C:0.27, G:0.32, T:0.24
Consensus pattern (19 bp):
AGGGGGTATCGATTCCCCT
Found at i:363451 original size:31 final size:31
Alignment explanation
Indices: 363416--363602 Score: 304
Period size: 31 Copynumber: 6.0 Consensus size: 31
363406 AGGGTCGAGG
**
363416 GTTTACCTATGTTCTTCAAGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
363447 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
363478 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
363509 GTTTACCTATGTTCTTCGGGACATATGGATT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
363540 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* * *
363571 GATTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
363602 G
1 G
363603 GTCCTTCGGG
Statistics
Matches: 148, Mismatches: 7, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
31 147 0.99
32 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.39
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:364591 original size:16 final size:15
Alignment explanation
Indices: 364565--364594 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
364555 CGTTTTGGAC
364565 AAAAGGAAAAAGGGA
1 AAAAGGAAAAAGGGA
364580 AAAAGAGAAAAAGGG
1 AAAAG-GAAAAAGGG
364595 GAAGCATGCG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (15 bp):
AAAAGGAAAAAGGGA
Found at i:366557 original size:21 final size:21
Alignment explanation
Indices: 366531--366621 Score: 150
Period size: 21 Copynumber: 4.4 Consensus size: 21
366521 TTTCCAAATT
366531 CGTTGCGATAGTCCAAGTTCG
1 CGTTGCGATAGTCCAAGTTCG
366552 CGTTGCGATAGTCCAAGTT--
1 CGTTGCGATAGTCCAAGTTCG
*
366571 CGTTGCGATAGTCGAAGTTCG
1 CGTTGCGATAGTCCAAGTTCG
*
366592 CGTTGCGATAGTCGAAGTTCG
1 CGTTGCGATAGTCCAAGTTCG
366613 CGTTGCGAT
1 CGTTGCGAT
366622 TTATTCGATA
Statistics
Matches: 67, Mismatches: 1, Indels: 4
0.93 0.01 0.06
Matches are distributed among these distances:
19 18 0.27
21 49 0.73
ACGTcount: A:0.19, C:0.21, G:0.31, T:0.30
Consensus pattern (21 bp):
CGTTGCGATAGTCCAAGTTCG
Found at i:366559 original size:40 final size:40
Alignment explanation
Indices: 366515--366718 Score: 174
Period size: 40 Copynumber: 4.7 Consensus size: 40
366505 ACTATAGCAA
* *
366515 TGCGATTTTCCAAATTCGTTGCGATAGTCCAAGTTCGCGT
1 TGCGATTTTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGT
**
366555 TGCGATAGTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGT
1 TGCGATTTTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGT
** * *
366595 TGCGATAGTCGAAGTTCGCGTTGCGATTTATTCGATAGTCGAAGTTCGCAT
1 TGCGATTTTCCAAGTT--CGTT--G-------CGATAGTCGAAGTTCGCGT
366646 TGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGT
1 TGCGA-TT-TTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGT
* * *
366688 TTCGATTTATTCCAAATTCGTTGAGATAGTC
1 TGCGA-TT-TTCCAAGTTCGTTGCGATAGTC
366719 CAAAATCGCA
Statistics
Matches: 138, Mismatches: 13, Indels: 24
0.79 0.07 0.14
Matches are distributed among these distances:
40 51 0.37
42 50 0.36
44 1 0.01
49 1 0.01
51 27 0.20
52 1 0.01
53 7 0.05
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.35
Consensus pattern (40 bp):
TGCGATTTTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGT
Found at i:366633 original size:30 final size:30
Alignment explanation
Indices: 366597--366657 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
366587 GTTCGCGTTG
*
366597 CGATAGTCGAAGTTCGCGTTGCGATTTATT
1 CGATAGTCGAAGTTCGCATTGCGATTTATT
366627 CGATAGTCGAAGTTCGCATTGCGATTTATT
1 CGATAGTCGAAGTTCGCATTGCGATTTATT
366657 C
1 C
366658 CAAGTTCGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (30 bp):
CGATAGTCGAAGTTCGCATTGCGATTTATT
Found at i:366651 original size:21 final size:20
Alignment explanation
Indices: 366627--366685 Score: 66
Period size: 19 Copynumber: 2.9 Consensus size: 20
366617 GCGATTTATT
366627 CGATAGTCGAAGTTCGCATTG
1 CGATAGTCGAAGTTCGC-TTG
* *
366648 CGATTTATTCCAAGTTCG-TTG
1 CGA--TAGTCGAAGTTCGCTTG
366669 CGATAGTCGAAGTTCGC
1 CGATAGTCGAAGTTCGC
366686 GTTTCGATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
19 11 0.35
21 9 0.29
23 11 0.35
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.32
Consensus pattern (20 bp):
CGATAGTCGAAGTTCGCTTG
Found at i:366668 original size:51 final size:50
Alignment explanation
Indices: 366576--366672 Score: 133
Period size: 51 Copynumber: 1.9 Consensus size: 50
366566 AAGTTCGTTG
* *
366576 CGATAGTCGAAGTTCGCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATT
1 CGATAGTCGAAGTTCGCATTGCGATAGTCCAAGTTC-CGTTGCGATTTATT
*
366627 CGATAGTCGAAGTTCGCATTGCGATTTATTCCAAGTT-CGTTGCGAT
1 CGATAGTCGAAGTTCGCATTGCGA--TAGTCCAAGTTCCGTTGCGAT
366673 AGTCGAAGTT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
51 32 0.78
53 9 0.22
ACGTcount: A:0.21, C:0.19, G:0.27, T:0.34
Consensus pattern (50 bp):
CGATAGTCGAAGTTCGCATTGCGATAGTCCAAGTTCCGTTGCGATTTATT
Found at i:366688 original size:21 final size:21
Alignment explanation
Indices: 366627--366693 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
366617 GCGATTTATT
* *
366627 CGATAGTCGAAGTTCGCATTG
1 CGATAGTCCAAGTTCGCGTTG
*
366648 CGATTTATTCCAAGTT--CGTTG
1 CGA--TAGTCCAAGTTCGCGTTG
* *
366669 CGATAGTCGAAGTTCGCGTTT
1 CGATAGTCCAAGTTCGCGTTG
366690 CGAT
1 CGAT
366694 TTATTCCAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
19 9 0.25
21 18 0.50
23 9 0.25
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.34
Consensus pattern (21 bp):
CGATAGTCCAAGTTCGCGTTG
Found at i:366694 original size:42 final size:42
Alignment explanation
Indices: 366627--366718 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
366617 GCGATTTATT
*
366627 CGATAGTCGAAGTTCGCATTGCGATTTATTCCAAGTTCGTTG
1 CGATAGTCGAAGTTCGCATTGCGATTTATTCCAAATTCGTTG
* *
366669 CGATAGTCGAAGTTCGCGTTTCGATTTATTCCAAATTCGTTG
1 CGATAGTCGAAGTTCGCATTGCGATTTATTCCAAATTCGTTG
*
366711 AGATAGTC
1 CGATAGTC
366719 CAAAATCGCA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.36
Consensus pattern (42 bp):
CGATAGTCGAAGTTCGCATTGCGATTTATTCCAAATTCGTTG
Found at i:366710 original size:93 final size:90
Alignment explanation
Indices: 366536--366710 Score: 235
Period size: 93 Copynumber: 1.9 Consensus size: 90
366526 AAATTCGTTG
*
366536 CGATAGTCCAAGTTCGCGTTGCGATAGTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGAT
1 CGATAGTCCAAGTTCGCATTGCGATAGTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGAT
* *
366601 AGTCGAAGTTCGCGTTGCGATTTATT
66 AGTCCAAATTC-CGTTGCGATTTATT
* * *
366627 CGATAGTCGAAGTTCGCATTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTTCG
1 CGATAGTCCAAGTTCGCATTGCGA--TAGTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCG
*
366692 ATTTATTCCAAATT-CGTTG
64 A--TAGTCCAAATTCCGTTG
366711 AGATAGTCCA
Statistics
Matches: 73, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
91 22 0.30
93 43 0.59
95 8 0.11
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.34
Consensus pattern (90 bp):
CGATAGTCCAAGTTCGCATTGCGATAGTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGAT
AGTCCAAATTCCGTTGCGATTTATT
Found at i:371105 original size:21 final size:21
Alignment explanation
Indices: 371081--371120 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
371071 ACATTTATAA
*
371081 TATTTATTATAAAAAATTAAT
1 TATTAATTATAAAAAATTAAT
* *
371102 TATTAATTTTAAAATATTA
1 TATTAATTATAAAAAATTA
371121 TAATAATCCT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
TATTAATTATAAAAAATTAAT
Found at i:372810 original size:20 final size:20
Alignment explanation
Indices: 372757--372812 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 20
372747 AATTAGATGA
*
372757 AGTAGTATCGATACTGATTC
1 AGTAGTATCGATACCGATTC
* *
372777 AATCAGTGTCGATACCGATT-
1 AGT-AGTATCGATACCGATTC
372797 AGGTAGTATCGATACC
1 A-GTAGTATCGATACC
372813 ATGATAAGAG
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
20 14 0.48
21 15 0.52
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.30
Consensus pattern (20 bp):
AGTAGTATCGATACCGATTC
Found at i:372998 original size:95 final size:96
Alignment explanation
Indices: 372800--372985 Score: 250
Period size: 95 Copynumber: 1.9 Consensus size: 96
372790 ACCGATTAGG
* *
372800 TAGTATCGATACCATGATAAGAGGTATCGATACCAAGAAACATCGAATCTAATTTTGGTATCAAT
1 TAGTATCGATACCATGATAAGAGGTATCAATACCAAGAAACATCGAACCTAATTTTGGTATCAAT
* * *
372865 ACCGATAGGGGGTATCGGTACCATAGAAGGA
66 ACCCAAAGGGGGTATCAGTACCATAGAAGGA
* * * *
372896 TAGTATCGATACCATGTTAAG-GGTATCAATACCATA-CAACATCGAACCTATTTTTGGTATCGA
1 TAGTATCGATACCATGATAAGAGGTATCAATACCA-AGAAACATCGAACCTAATTTTGGTATCAA
* *
372959 TACCCAAAGGGGTTATCAGTACTATAG
65 TACCCAAAGGGGGTATCAGTACCATAG
372986 TATAGAAGTA
Statistics
Matches: 78, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
95 57 0.73
96 21 0.27
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.27
Consensus pattern (96 bp):
TAGTATCGATACCATGATAAGAGGTATCAATACCAAGAAACATCGAACCTAATTTTGGTATCAAT
ACCCAAAGGGGGTATCAGTACCATAGAAGGA
Found at i:373444 original size:59 final size:59
Alignment explanation
Indices: 373355--373527 Score: 260
Period size: 59 Copynumber: 3.0 Consensus size: 59
373345 ATGGCACTAA
** * *
373355 GTGTGC-AAAATGTTAAAAAATTCAAACTAAGTGTATGAATTTCCGTATTGGGCACTTT
1 GTGTGCTAAAATACTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
* *
373413 GTGTGCTAAAATACTAAGAAATTCATACTAAGTGAATGAATTTCCATATTGGGCACTTT
1 GTGTGCTAAAATACTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
* *
373472 ATGTGCTAAAATACTAAGAAATTCATACTAAGTGTATGAATTTTCGTA-TGGGCACT
1 GTGTGCTAAAATACTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACT
373528 ACGTGTGCGA
Statistics
Matches: 104, Mismatches: 10, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
58 14 0.13
59 90 0.87
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.34
Consensus pattern (59 bp):
GTGTGCTAAAATACTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
Found at i:373897 original size:68 final size:68
Alignment explanation
Indices: 373785--374017 Score: 324
Period size: 68 Copynumber: 3.4 Consensus size: 68
373775 AAAGATTAAT
* * * *
373785 AGGCCTAACTGTGCATTTGACAGAAATGTGTCATTTATGCCAGTTAGATGAAATGCTAAGTACCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTAATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
373850 TTG
66 TTG
* * *
373853 AGGCCTAACTGTGCATATGACAGAAAGGTGTAATTTATGTCAGTTAGATGAAAGGCTGAGTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTAATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
373918 TTG
66 TTG
* * * *
373921 AGGCCTAACTGTGAATTTGACAGAAAGGTGTCAA-TTATGCCAGTTATATGAAAGGCTAAATGCG
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGT-AATTTATGCCAGTTAGATGAAAGGCTAAGTGCC
373985 TTTG
65 TTTG
* **
373989 AGGCCTAACTGTGCAATTGGTAGAAAGGT
1 AGGCCTAACTGTGCATTTGACAGAAAGGT
374018 ACCAATTATA
Statistics
Matches: 146, Mismatches: 18, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
68 144 0.99
69 2 0.01
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (68 bp):
AGGCCTAACTGTGCATTTGACAGAAAGGTGTAATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
TTG
Found at i:374024 original size:68 final size:68
Alignment explanation
Indices: 373785--374058 Score: 311
Period size: 68 Copynumber: 4.0 Consensus size: 68
373775 AAAGATTAAT
* * * * * *
373785 AGGCCTAACTGTGCATTTGACAGAAATGTGTCATTTATGCCAGTTAGATGAAATGCTAAGTACCT
1 AGGCCTAACTGTGCAATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAATGCCT
373850 TTG
66 TTG
* * *
373853 AGGCCTAACTGTGC-ATATGACAGAAAGGTGT-AATTTATGTCAGTTAGATGAAAGGCTGAGTGC
1 AGGCCTAACTGTGCAAT-TGACAGAAAGGTGTCAA-TTATGCCAGTTAGATGAAAGGCTAAATGC
373916 CTTTG
64 CTTTG
* *
373921 AGGCCTAACTGTG-AATTTGACAGAAAGGTGTCAATTATGCCAGTTATATGAAAGGCTAAATGCG
1 AGGCCTAACTGTGCAA-TTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAATGCC
373985 TTTG
65 TTTG
** ** * * * * * *
373989 AGGCCTAACTGTGCAATTGGTAGAAAGGTACCAATTATACCAATTAGATGAACGGTTAAATACCA
1 AGGCCTAACTGTGCAATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAATGCCT
374054 TTG
66 TTG
374057 AG
1 AG
374059 TAAAAGAATA
Statistics
Matches: 176, Mismatches: 24, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
67 2 0.01
68 169 0.96
69 5 0.03
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (68 bp):
AGGCCTAACTGTGCAATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAATGCCT
TTG
Found at i:374233 original size:81 final size:81
Alignment explanation
Indices: 373990--374234 Score: 373
Period size: 81 Copynumber: 3.0 Consensus size: 81
373980 ATGCGTTTGA
* * * *
373990 GGCCTAACTGTGCAATTGGTAGAAAGGTACCAATTATACCAATTAGATGAACGGTTAAATACCAT
1 GGCCTAACTGTGCAATTGGTAGAAAGGTAACAATTATGCCAGTTAGATGAACGGTTAAATACCGT
374055 TGAGTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
** * * *
374071 ACCCTAACTGTGCAATTGGTAGAAAAGTAACAATTATGTCAGTTAGATGAACTGTTAAATACCGT
1 GGCCTAACTGTGCAATTGGTAGAAAGGTAACAATTATGCCAGTTAGATGAACGGTTAAATACCGT
374136 TGAGTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
* * *
374152 GGCCTAACTGTGTAATTGGTAGAAAGGTATCAATTATGCCAGTTAGATGAACGGTTAAATAACGT
1 GGCCTAACTGTGCAATTGGTAGAAAGGTAACAATTATGCCAGTTAGATGAACGGTTAAATACCGT
*
374217 TGAGTAAATGAATAAT
66 TGAGTAAAAGAATAAT
374233 GG
1 GG
374235 TTAAACACTG
Statistics
Matches: 146, Mismatches: 18, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 146 1.00
ACGTcount: A:0.39, C:0.12, G:0.21, T:0.28
Consensus pattern (81 bp):
GGCCTAACTGTGCAATTGGTAGAAAGGTAACAATTATGCCAGTTAGATGAACGGTTAAATACCGT
TGAGTAAAAGAATAAT
Found at i:378429 original size:21 final size:20
Alignment explanation
Indices: 378404--378457 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 20
378394 TTAGATGAAG
*
378404 TAGTATTGATACTGATTAAA
1 TAGTATTGATACCGATTAAA
* **
378424 TCAGTATCGATACCGATTAGG
1 T-AGTATTGATACCGATTAAA
378445 TAGTATTGATACC
1 TAGTATTGATACC
378458 ATGATAAGGG
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (20 bp):
TAGTATTGATACCGATTAAA
Found at i:379059 original size:59 final size:59
Alignment explanation
Indices: 378980--379139 Score: 241
Period size: 59 Copynumber: 2.7 Consensus size: 59
378970 ATGGCACTAA
** * **
378980 GTGTGC-AAAATGTTAAGAAATTCAAACTAAGTGTATGAATTTCTGTATTGGCCACTTT
1 GTGTGCTAAAATACTAAGAAATTCATACTAAGTGTATGAATTTCCATATTGGCCACTTT
* *
379038 GTGTGCTAAAATACTAAGAAATTCATACTAAGTGAATGAATTTCCATATTGGGCACTTT
1 GTGTGCTAAAATACTAAGAAATTCATACTAAGTGTATGAATTTCCATATTGGCCACTTT
*
379097 ATGTGCTAAAATACTAAGAAATTCATACTAAGTGTATGAATTT
1 GTGTGCTAAAATACTAAGAAATTCATACTAAGTGTATGAATTT
379140 TCGTATGGGC
Statistics
Matches: 92, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
58 6 0.07
59 86 0.93
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.35
Consensus pattern (59 bp):
GTGTGCTAAAATACTAAGAAATTCATACTAAGTGTATGAATTTCCATATTGGCCACTTT
Found at i:379624 original size:68 final size:68
Alignment explanation
Indices: 379433--379665 Score: 297
Period size: 68 Copynumber: 3.4 Consensus size: 68
379423 AATTTAACAT
* * * * * ** *
379433 AAATGTCTCATTTATGCCAGATAGATGAAATGCTAAGTGCCTTTGAGGCCTAACTATATATATGA
1 AAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGTGCATTTGA
*
379498 CAG
66 TAG
379501 AAATGTGT-AATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGTGCATTTG
1 AAATGTGTCAA-TTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGTGCATTTG
379565 ATAG
65 ATAG
* * * *
379569 AAATGTGTCAATTATGCTAGTTAGATGAAAGGCTAAGTGCCTTTGAGACCTAACTGTGCAATTGG
1 AAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGTGCATTTGA
379634 TAG
66 TAG
* ** *
379637 AAAGGTACCAATTATGCCAGCTAGATGAA
1 AAATGTGTCAATTATGCCAGTTAGATGAA
379666 CGATTAAATA
Statistics
Matches: 145, Mismatches: 18, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
67 1 0.01
68 142 0.98
69 2 0.01
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.30
Consensus pattern (68 bp):
AAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGTGCATTTGA
TAG
Found at i:379682 original size:68 final size:68
Alignment explanation
Indices: 379512--379683 Score: 173
Period size: 68 Copynumber: 2.5 Consensus size: 68
379502 AATGTGTAAT
* * * * * * * * **
379512 TTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGTGCATTTGATAGAAATGTGT
1 TTATGCCAGCTAGATGAAAGACTAAATACATTTGAGACCTAACTGTGCAATTGATAGAAAGGTAC
379577 CAA
66 CAA
* * * * * * *
379580 TTATGCTAGTTAGATGAAAGGCTAAGTGCCTTTGAGACCTAACTGTGCAATTGGTAGAAAGGTAC
1 TTATGCCAGCTAGATGAAAGACTAAATACATTTGAGACCTAACTGTGCAATTGATAGAAAGGTAC
379645 CAA
66 CAA
* *
379648 TTATGCCAGCTAGATGAACGATTAAATACATTTGAG
1 TTATGCCAGCTAGATGAAAGACTAAATACATTTGAG
379684 TAAGAGAATA
Statistics
Matches: 89, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
68 89 1.00
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.30
Consensus pattern (68 bp):
TTATGCCAGCTAGATGAAAGACTAAATACATTTGAGACCTAACTGTGCAATTGATAGAAAGGTAC
CAA
Found at i:379755 original size:81 final size:81
Alignment explanation
Indices: 379617--380011 Score: 562
Period size: 81 Copynumber: 4.9 Consensus size: 81
379607 GCCTTTGAGA
* * * **
379617 CCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGCTAGATGAACGATTAAATACATTTG
1 CCTAACTGTGCAATTGGTAGAAAGATACCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTG
*
379682 AGTAAGAGAATAATAG
66 AGTAAAAGAATAATAG
* * *
379698 CCTAACTGTGCAATTAGTAGAAAGATACCAATTATGCCAGTTAGATGAACGGCTAAATGCCGTTG
1 CCTAACTGTGCAATTGGTAGAAAGATACCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTG
*
379763 AGTAAAACAATAATAG
66 AGTAAAAGAATAATAG
* * *
379779 CATAACTGTGCAATTGGTAGAAAGGTACCAATTATGCTAGTTAGATGAACGGTTAAATACCGTTG
1 CCTAACTGTGCAATTGGTAGAAAGATACCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTG
379844 AGTAAAAGAATAATAG
66 AGTAAAAGAATAATAG
* * * *
379860 TCAAACTGTGCAATTGGTAGAAA-AGTACCAATTATG-CAGTTAGATAAACGGTTAAATACTGTT
1 CCTAACTGTGCAATTGGTAGAAAGA-TACCAATTATGCCAGTTAGATGAACGGTTAAATACCGTT
* * *
379923 GACTAAAAGAATATTGG
65 GAGTAAAAGAATAATAG
*
379940 CCTAACTGTGCAATTGGTAGAAA-AGTATCAATTATGCCAGTTAGATGAACGGTTAAATACCGTT
1 CCTAACTGTGCAATTGGTAGAAAGA-TACCAATTATGCCAGTTAGATGAACGGTTAAATACCGTT
380004 GAGTAAAA
65 GAGTAAAA
380012 CACATTAGAA
Statistics
Matches: 279, Mismatches: 33, Indels: 4
0.88 0.10 0.01
Matches are distributed among these distances:
80 71 0.25
81 208 0.75
ACGTcount: A:0.39, C:0.13, G:0.21, T:0.27
Consensus pattern (81 bp):
CCTAACTGTGCAATTGGTAGAAAGATACCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTG
AGTAAAAGAATAATAG
Found at i:379891 original size:162 final size:161
Alignment explanation
Indices: 379619--380011 Score: 581
Period size: 161 Copynumber: 2.4 Consensus size: 161
379609 CTTTGAGACC
* * **
379619 TAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGCTAGATGAACGATTAAATACATTTGAG
1 TAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTGAG
* * *
379684 TAAGAGAATAATAGCCTAACTGTGCAATTAGTAGAAAGATACCAATTATGCCAGTTAGATGAACG
66 TAAAAGAATAATAGCCAAACTGTGCAATTAGTAGAAAGATACCAATTATG-CAGTTAGATAAACG
* *
379749 GCTAAATGCCGTTGAGTAAAACAATAATAGCA
130 GCTAAATACCGTTGACTAAAACAATAATAGCA
*
379781 TAACTGTGCAATTGGTAGAAAGGTACCAATTATGCTAGTTAGATGAACGGTTAAATACCGTTGAG
1 TAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTGAG
* *
379846 TAAAAGAATAATAGTCAAACTGTGCAATTGGTAGAAA-AGTACCAATTATGCAGTTAGATAAACG
66 TAAAAGAATAATAGCCAAACTGTGCAATTAGTAGAAAGA-TACCAATTATGCAGTTAGATAAACG
* * * * * *
379910 GTTAAATACTGTTGACTAAAAGAATATTGGCC
130 GCTAAATACCGTTGACTAAAACAATAATAGCA
* *
379942 TAACTGTGCAATTGGTAGAAAAGTATCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTGAG
1 TAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTGAG
380007 TAAAA
66 TAAAA
380012 CACATTAGAA
Statistics
Matches: 209, Mismatches: 21, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
161 105 0.50
162 104 0.50
ACGTcount: A:0.39, C:0.13, G:0.21, T:0.27
Consensus pattern (161 bp):
TAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTGAG
TAAAAGAATAATAGCCAAACTGTGCAATTAGTAGAAAGATACCAATTATGCAGTTAGATAAACGG
CTAAATACCGTTGACTAAAACAATAATAGCA
Found at i:380103 original size:59 final size:59
Alignment explanation
Indices: 380027--380169 Score: 243
Period size: 59 Copynumber: 2.4 Consensus size: 59
380017 TAGAAAAGTG
* * *
380027 GTGTATGTATTTCCGTATTGGGCACTTTGTGTGCTAAAATACTAAGAAATTCATACTAA
1 GTGTATGAATTTTCGTATTGGGCACTTTGTATGCTAAAATACTAAGAAATTCATACTAA
*
380086 GTGTATGAATTTTCGTATTGGTCACTTTGTATGCTAAAATACTAAGAAATTCATACTAA
1 GTGTATGAATTTTCGTATTGGGCACTTTGTATGCTAAAATACTAAGAAATTCATACTAA
380145 GTGTATGAATTTTCGTA-TGGGCACT
1 GTGTATGAATTTTCGTATTGGGCACT
380170 ACGTGTACGA
Statistics
Matches: 79, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
58 7 0.09
59 72 0.91
ACGTcount: A:0.30, C:0.13, G:0.19, T:0.38
Consensus pattern (59 bp):
GTGTATGAATTTTCGTATTGGGCACTTTGTATGCTAAAATACTAAGAAATTCATACTAA
Found at i:380539 original size:68 final size:68
Alignment explanation
Indices: 380427--380645 Score: 321
Period size: 68 Copynumber: 3.2 Consensus size: 68
380417 AAAGATTAAT
* * * * * *
380427 AGGCCTAACTGTGCATTTAAAAGAAAGATATCATTTATGTCAGTTAGATGAAATGCTAAGTACCT
1 AGGCCTAACTGTGCATTTGAAAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
*
380492 CTG
66 TTG
* * *
380495 AGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTACGTGCCT
1 AGGCCTAACTGTGCATTTGAAAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
380560 TTG
66 TTG
* * *
380563 AGGCCTAACTTTGCATTTGATAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCATTTGAAAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
380628 TTG
66 TTG
380631 AGGCCTAACTGTGCA
1 AGGCCTAACTGTGCA
380646 ATTGGTAGAA
Statistics
Matches: 135, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
68 135 1.00
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (68 bp):
AGGCCTAACTGTGCATTTGAAAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
TTG
Found at i:380682 original size:68 final size:68
Alignment explanation
Indices: 380427--380671 Score: 303
Period size: 68 Copynumber: 3.6 Consensus size: 68
380417 AAAGATTAAT
* * * * * * * * *
380427 AGGCCTAACTGTGCATTTAAAAGAAAGATATCATTTATGTCAGTTAGATGAAATGCTAAGTACCT
1 AGGCCTAACTGTGCAATTGATAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
*
380492 CTG
66 TTG
* * *
380495 AGGCCTAACTGTGC-ATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTACGTGCC
1 AGGCCTAACTGTGCAAT-TGATAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCC
380559 TTTG
65 TTTG
* *
380563 AGGCCTAACTTTGCATTTGATAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCAATTGATAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
380628 TTG
66 TTG
* **
380631 AGGCCTAACTGTGCAATTGGTAGAAAAGGTACCAATTATGC
1 AGGCCTAACTGTGCAATTGATAG-AAAGGTGTCAATTATGC
380672 TGCTAGATGA
Statistics
Matches: 154, Mismatches: 20, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
67 1 0.01
68 137 0.89
69 16 0.10
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (68 bp):
AGGCCTAACTGTGCAATTGATAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
TTG
Found at i:380700 original size:68 final size:68
Alignment explanation
Indices: 380427--380700 Score: 221
Period size: 68 Copynumber: 4.0 Consensus size: 68
380417 AAAGATTAAT
* * * * * * * * * *
380427 AGGCCTAACTGTGCATTTAAAAGAAAGATATCATTTATGTCAGTTAGATGAAATGCTAAGTACC-
1 AGGCCTAACTGTGCAATTGATAGAAAGGTACCAATTATGCCAGCTAGATGAAAGGCTAAATACCA
380491 TCTG
66 T-TG
* ** * * ** *
380495 AGGCCTAACTGTGC-ATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTACGTGCC
1 AGGCCTAACTGTGCAAT-TGATAGAAAGGTACCAATTATGCCAGCTAGATGAAAGGCTAAATACC
*
380559 TTTG
65 ATTG
* * ** * * * *
380563 AGGCCTAACTTTGCATTTGATAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCAATTGATAGAAAGGTACCAATTATGCCAGCTAGATGAAAGGCTAAATACCA
380628 TTG
66 TTG
* * * *
380631 AGGCCTAACTGTGCAATTGGTAGAAAAGGTACCAATTATG-CTGCTAGATGAACGGTTAAATACC
1 AGGCCTAACTGTGCAATTGATAG-AAAGGTACCAATTATGCCAGCTAGATGAAAGGCTAAATACC
380695 ATTG
65 ATTG
380699 AG
1 AG
380701 TAAAAGAATA
Statistics
Matches: 176, Mismatches: 26, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
67 1 0.01
68 159 0.90
69 16 0.09
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.29
Consensus pattern (68 bp):
AGGCCTAACTGTGCAATTGATAGAAAGGTACCAATTATGCCAGCTAGATGAAAGGCTAAATACCA
TTG
Found at i:380700 original size:136 final size:136
Alignment explanation
Indices: 380427--380700 Score: 309
Period size: 136 Copynumber: 2.0 Consensus size: 136
380417 AAAGATTAAT
* * *
380427 AGGCCTAACTGTGCATTTAAAAGAAAGATATCATTTATGTCAGTTAGATGAAATGCTAAGTACCT
1 AGGCCTAACTGTGCATTTAAAAGAAAGATATCAATTATGCCAGTTAGATGAAAGGCTAAGTACCT
** * * ** *
380492 CTGAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTACGTG
66 CTGAGGCCTAACTGTGCATATGACAGAAAGGTACCAATTATGCCAGCTAGATGAAAGGCTAAATA
*
380557 CCTTTG
131 CCATTG
* * * * * *
380563 AGGCCTAACTTTGCATTTGATAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCATTTAAAAGAAAGATATCAATTATGCCAGTTAGATGAAAGGCTAAGTACCT
* ** * * *
380628 TTGAGGCCTAACTGTGCA-ATTGGTAGAAAAGGTACCAATTATG-CTGCTAGATGAACGGTTAAA
66 CTGAGGCCTAACTGTGCATA-TGACAG-AAAGGTACCAATTATGCCAGCTAGATGAAAGGCTAAA
380691 TACCATTG
129 TACCATTG
380699 AG
1 AG
380701 TAAAAGAATA
Statistics
Matches: 113, Mismatches: 23, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
135 1 0.01
136 99 0.88
137 13 0.12
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.29
Consensus pattern (136 bp):
AGGCCTAACTGTGCATTTAAAAGAAAGATATCAATTATGCCAGTTAGATGAAAGGCTAAGTACCT
CTGAGGCCTAACTGTGCATATGACAGAAAGGTACCAATTATGCCAGCTAGATGAAAGGCTAAATA
CCATTG
Found at i:380775 original size:81 final size:81
Alignment explanation
Indices: 380633--381034 Score: 533
Period size: 81 Copynumber: 5.0 Consensus size: 81
380623 TGCCTTTGAG
* * * *
380633 GCCTAACTGTGCAATTGGTAGAAAAGGTACCAATTATG-CTGCTAGATGAACGGTTAAATACCAT
1 GCCTAACTGTGCAATTGGTAG-AAAGATACCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
380697 TGAGTAAAAGAATAATA
65 TGAGTAAAAGAATAATA
* * * * *
380714 ACATAATTGTGCAATTAGTAGAAAGATACCAATTATGCCAGTTAGATGAACGGTTAAATACCATT
1 GCCTAACTGTGCAATTGGTAGAAAGATACCAATTATGCCAGTTAGATGAACGGTTAAATACCGTT
**
380779 GAGTAAACCAATAATA
66 GAGTAAAAGAATAATA
* * *
380795 GCCTAACTGTGCAATTGGTAGAAAGATTCCAATTATGCCAGTTAGATGAAAGGTTAAATATCGTT
1 GCCTAACTGTGCAATTGGTAGAAAGATACCAATTATGCCAGTTAGATGAACGGTTAAATACCGTT
*
380860 GAGTAAAATAATAATA
66 GAGTAAAAGAATAATA
* * * * *
380876 GTCTAACTGTGCAATTGGTAGAAA-AGTACCAATTACGCCAGTTATATGAA-AGTTAAATATCGT
1 GCCTAACTGTGCAATTGGTAGAAAGA-TACCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
* *
380939 TGAGTAAAATAATAATG
65 TGAGTAAAAGAATAATA
* * *
380956 GCCTAACTATGCAATTGGTAGAAAGGTACCAATTAT-ACAGTTAGATGAACGGTTAAATACCGTT
1 GCCTAACTGTGCAATTGGTAGAAAGATACCAATTATGCCAGTTAGATGAACGGTTAAATACCGTT
381020 GAGTAAAAGAATAAT
66 GAGTAAAAGAATAAT
381035 GGTTAAACAC
Statistics
Matches: 283, Mismatches: 34, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
79 11 0.04
80 101 0.36
81 171 0.60
ACGTcount: A:0.41, C:0.12, G:0.19, T:0.28
Consensus pattern (81 bp):
GCCTAACTGTGCAATTGGTAGAAAGATACCAATTATGCCAGTTAGATGAACGGTTAAATACCGTT
GAGTAAAAGAATAATA
Found at i:381049 original size:29 final size:29
Alignment explanation
Indices: 381006--381065 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 29
380996 TTAGATGAAC
* *
381006 GGTTAAATACCGTTGAGTAAAAGAATAAT
1 GGTTAAACACCGTTGAATAAAAGAATAAT
* *
381035 GGTTAAACACTGTTGAATAAAAGAATGAT
1 GGTTAAACACCGTTGAATAAAAGAATAAT
381064 GG
1 GG
381066 ATTAGTTGTG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.43, C:0.07, G:0.23, T:0.27
Consensus pattern (29 bp):
GGTTAAACACCGTTGAATAAAAGAATAAT
Found at i:382120 original size:2 final size:2
Alignment explanation
Indices: 382113--382144 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
382103 TTAAATTCAT
382113 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
382145 ATTTTAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:383506 original size:18 final size:18
Alignment explanation
Indices: 383483--383519 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
383473 TGCATTAAAT
383483 GGTCTATAAGAAAATGAC
1 GGTCTATAAGAAAATGAC
*
383501 GGTCTATGAGAAAATGAC
1 GGTCTATAAGAAAATGAC
383519 G
1 G
383520 TTATTTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.41, C:0.11, G:0.27, T:0.22
Consensus pattern (18 bp):
GGTCTATAAGAAAATGAC
Found at i:383574 original size:32 final size:32
Alignment explanation
Indices: 383538--383623 Score: 136
Period size: 32 Copynumber: 2.7 Consensus size: 32
383528 AAATGAAATA
383538 ATATATCACTGAAAAGTTTATGAAATAAAGTG
1 ATATATCACTGAAAAGTTTATGAAATAAAGTG
* * * *
383570 ATATATAATTGAAAAGTTTCTGAAATGAAGTG
1 ATATATCACTGAAAAGTTTATGAAATAAAGTG
383602 ATATATCACTGAAAAGTTTATG
1 ATATATCACTGAAAAGTTTATG
383624 TAATTGTGCA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 47 1.00
ACGTcount: A:0.44, C:0.06, G:0.16, T:0.34
Consensus pattern (32 bp):
ATATATCACTGAAAAGTTTATGAAATAAAGTG
Found at i:387991 original size:17 final size:17
Alignment explanation
Indices: 387957--387989 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
387947 TTTTATTATA
387957 ATTATATAATTATATTT
1 ATTATATAATTATATTT
*
387974 ATTATTTAA-TATATTT
1 ATTATATAATTATATTT
387990 TACCTTAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
ATTATATAATTATATTT
Found at i:393590 original size:2 final size:2
Alignment explanation
Indices: 393583--393644 Score: 63
Period size: 2 Copynumber: 31.0 Consensus size: 2
393573 AGTTTTATTA
* * * *
393583 AT AT AT AT AT AT AT AT AT AT AT ACT AT TT AT TT AT TT AT TT AT
1 AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT
*
393626 TT AT -T AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
393645 TATTTTTTAC
Statistics
Matches: 48, Mismatches: 10, Indels: 4
0.77 0.16 0.06
Matches are distributed among these distances:
1 1 0.02
2 45 0.94
3 2 0.04
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (2 bp):
AT
Found at i:393639 original size:38 final size:36
Alignment explanation
Indices: 393592--393668 Score: 111
Period size: 38 Copynumber: 2.1 Consensus size: 36
393582 AATATATATA
393592 TATATATATATATACTATTTATTTA-TTTATTTATTTAT
1 TATATATATATATACTATTT-TTTACTTT-TTTA-TTAT
*
393630 TATATATATATATATTATTTTTTACTTTTTTATTAT
1 TATATATATATATACTATTTTTTACTTTTTTATTAT
393666 TAT
1 TAT
393669 TTTATTTATT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
36 7 0.19
37 8 0.22
38 22 0.59
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (36 bp):
TATATATATATATACTATTTTTTACTTTTTTATTAT
Found at i:393666 original size:48 final size:49
Alignment explanation
Indices: 393576--393725 Score: 136
Period size: 48 Copynumber: 3.1 Consensus size: 49
393566 TATTATCAGT
* * *
393576 TTTATTA-ATATATATATATATATATATATAC-TATTTATTTATTTATTTA
1 TTTATTATATATATATATATATAT-TTTTTACTTTTTTA-TTATTTATTTA
393625 TTTATTATATATATATATAT-TATTTTTTACTTTTTTATTA-TTATTTTA
1 TTTATTATATATATATATATATATTTTTTACTTTTTTATTATTTA-TTTA
* * * *
393673 TTTATT-TGT-TTTATTTATATATTTTTCTTCTTTTTCT-TTATTT-TTTA
1 TTTATTATATATATATATATATATTTTT-TACTTTTT-TATTATTTATTTA
393720 TTTATT
1 TTTATT
393726 TACTTACTAT
Statistics
Matches: 87, Mismatches: 7, Indels: 16
0.79 0.06 0.15
Matches are distributed among these distances:
46 7 0.08
47 22 0.25
48 28 0.32
49 18 0.21
50 12 0.14
ACGTcount: A:0.27, C:0.03, G:0.01, T:0.69
Consensus pattern (49 bp):
TTTATTATATATATATATATATATTTTTTACTTTTTTATTATTTATTTA
Found at i:393668 original size:21 final size:22
Alignment explanation
Indices: 393642--393730 Score: 63
Period size: 27 Copynumber: 3.7 Consensus size: 22
393632 TATATATATA
393642 TATTATTTTTTACTTTTTTA-T
1 TATTATTTTTTACTTTTTTATT
*
393663 TATTATTTTATTTATTTGTTTTATT
1 TATTA-TTT-TTTACTT-TTTTATT
*
393688 TATATATTTTTCTTCTTTTTCTTTATT
1 TAT-TATTTTT-TAC--TTT-TTTATT
*
393715 TTTTATTTATTTACTT
1 TATTATTT-TTTACTT
393731 ACTATTTATC
Statistics
Matches: 53, Mismatches: 5, Indels: 17
0.71 0.07 0.23
Matches are distributed among these distances:
21 5 0.09
22 3 0.06
23 6 0.11
24 9 0.17
25 8 0.15
26 10 0.19
27 12 0.23
ACGTcount: A:0.18, C:0.06, G:0.01, T:0.75
Consensus pattern (22 bp):
TATTATTTTTTACTTTTTTATT
Found at i:393678 original size:4 final size:4
Alignment explanation
Indices: 393607--393727 Score: 78
Period size: 4 Copynumber: 30.5 Consensus size: 4
393597 ATATATATAC
* *
393607 TATT TATT TATT TATT TATT TATT ATATA TATA TATAT TATT T-TT TACTT
1 TATT TATT TATT TATT TATT TATT -TATT TATT TAT-T TATT TATT TA-TT
* *
393657 T-TT TA-T TA-T TATTT TATT TATT TGTTT TATT TATA TATT T-TT CT-TCT
1 TATT TATT TATT TA-TT TATT TATT T-ATT TATT TATT TATT TATT -TAT-T
*
393704 T-TT TCTT TATT T-TT TATT TATT TA
1 TATT TATT TATT TATT TATT TATT TA
393728 CTTACTATTT
Statistics
Matches: 98, Mismatches: 7, Indels: 24
0.76 0.05 0.19
Matches are distributed among these distances:
3 19 0.19
4 63 0.64
5 16 0.16
ACGTcount: A:0.23, C:0.03, G:0.01, T:0.73
Consensus pattern (4 bp):
TATT
Found at i:396646 original size:13 final size:13
Alignment explanation
Indices: 396628--396691 Score: 85
Period size: 13 Copynumber: 4.9 Consensus size: 13
396618 CAATTAGAAC
396628 AAAAAGAGAAAAA
1 AAAAAGAGAAAAA
396641 AAAAAGAGAAAAA
1 AAAAAGAGAAAAA
* *
396654 AGCAAAGAGAAAAT
1 A-AAAAGAGAAAAA
396668 AAAAAGAGAAAAA
1 AAAAAGAGAAAAA
*
396681 ACAAAG-GAAAA
1 AAAAAGAGAAAA
396692 TTGAAGAAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
12 5 0.11
13 29 0.64
14 11 0.24
ACGTcount: A:0.78, C:0.03, G:0.17, T:0.02
Consensus pattern (13 bp):
AAAAAGAGAAAAA
Done.