Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 304 of 325
Found at i:92907864 original size:24 final size:26
Alignment explanation
Indices: 92907804--92907866 Score: 85
Period size: 26 Copynumber: 2.5 Consensus size: 26
92907794 GTAAAATAAA
*
92907804 TTAAAACAAATAATATACGAAGCAAT
1 TTAAAACAAATAATATAAGAAGCAAT
*
92907830 TTAAAATAAATAATATAAG-A-CAAT
1 TTAAAACAAATAATATAAGAAGCAAT
*
92907854 TTAAAGCAAATAA
1 TTAAAACAAATAA
92907867 GAAGACAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
24 15 0.45
25 1 0.03
26 17 0.52
ACGTcount: A:0.60, C:0.08, G:0.06, T:0.25
Consensus pattern (26 bp):
TTAAAACAAATAATATAAGAAGCAAT
Found at i:92908493 original size:14 final size:14
Alignment explanation
Indices: 92908476--92908567 Score: 73
Period size: 14 Copynumber: 6.7 Consensus size: 14
92908466 ATATTTGAGT
*
92908476 ATTGAGGATTGAAA
1 ATTGAGAATTGAAA
*
92908490 ATTGAAAATTGAAA
1 ATTGAGAATTGAAA
*
92908504 ATTGAAAATTGAAA
1 ATTGAGAATTGAAA
* *
92908518 ATAT-AAAATTGGAA
1 AT-TGAGAATTGAAA
* *
92908532 ATTG-GGATTGAAG
1 ATTGAGAATTGAAA
* *
92908545 ATTG-GGATTGAAG
1 ATTGAGAATTGAAA
92908558 ATTGAGAATT
1 ATTGAGAATT
92908568 TAGAAAGAAA
Statistics
Matches: 67, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
13 23 0.34
14 43 0.64
15 1 0.01
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.30
Consensus pattern (14 bp):
ATTGAGAATTGAAA
Found at i:92908536 original size:7 final size:7
Alignment explanation
Indices: 92908483--92908535 Score: 81
Period size: 7 Copynumber: 7.6 Consensus size: 7
92908473 AGTATTGAGG
92908483 ATTGAAA
1 ATTGAAA
92908490 ATTGAAA
1 ATTGAAA
92908497 ATTGAAA
1 ATTGAAA
92908504 ATTGAAA
1 ATTGAAA
92908511 ATTGAAA
1 ATTGAAA
92908518 ATAT-AAA
1 AT-TGAAA
*
92908525 ATTGGAA
1 ATTGAAA
92908532 ATTG
1 ATTG
92908536 GGATTGAAGA
Statistics
Matches: 43, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
6 1 0.02
7 41 0.95
8 1 0.02
ACGTcount: A:0.55, C:0.00, G:0.15, T:0.30
Consensus pattern (7 bp):
ATTGAAA
Found at i:92908548 original size:13 final size:13
Alignment explanation
Indices: 92908532--92908561 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
92908522 AAAATTGGAA
92908532 ATTGGGATTGAAG
1 ATTGGGATTGAAG
92908545 ATTGGGATTGAAG
1 ATTGGGATTGAAG
92908558 ATTG
1 ATTG
92908562 AGAATTTAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.37, T:0.33
Consensus pattern (13 bp):
ATTGGGATTGAAG
Found at i:92909031 original size:30 final size:31
Alignment explanation
Indices: 92908997--92909063 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 31
92908987 TTCTATTTCT
92908997 GTCATTCATT-TTAAAAAAATTGTT-ATTTTA
1 GTCATTC-TTGTTAAAAAAATTGTTAATTTTA
* * *
92909027 GTCATTCTTGTTAGATAAGTTGTTAATTTTA
1 GTCATTCTTGTTAAAAAAATTGTTAATTTTA
92909058 GTCATT
1 GTCATT
92909064 TCCGTTCGAC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 2 0.06
30 18 0.56
31 12 0.38
ACGTcount: A:0.30, C:0.07, G:0.12, T:0.51
Consensus pattern (31 bp):
GTCATTCTTGTTAAAAAAATTGTTAATTTTA
Found at i:92909078 original size:31 final size:31
Alignment explanation
Indices: 92909016--92909090 Score: 82
Period size: 31 Copynumber: 2.5 Consensus size: 31
92909006 TTTAAAAAAA
* *
92909016 TTGTT-ATTTTAGTCATTCTTGTTAGATAAG
1 TTGTTAATTTTAGTCATTCTCGTTAGACAAG
*
92909046 TTGTTAATTTTAGTCATT-TCCGTTCGACAAG
1 TTGTTAATTTTAGTCATTCT-CGTTAGACAAG
* *
92909077 TTGTCAAATTTAGT
1 TTGTTAATTTTAGT
92909091 TACTCTACCA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
30 6 0.16
31 32 0.84
ACGTcount: A:0.24, C:0.11, G:0.16, T:0.49
Consensus pattern (31 bp):
TTGTTAATTTTAGTCATTCTCGTTAGACAAG
Found at i:92910470 original size:20 final size:21
Alignment explanation
Indices: 92910445--92910491 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
92910435 TGATGAAATA
* *
92910445 TTATTT-TTTTAATTAATTGT
1 TTATTTATTTAAATCAATTGT
92910465 TTATTTATTTAAATCAATTGT
1 TTATTTATTTAAATCAATTGT
92910486 TATATT
1 T-TATT
92910492 AAAATATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 6 0.26
21 13 0.57
22 4 0.17
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.64
Consensus pattern (21 bp):
TTATTTATTTAAATCAATTGT
Found at i:92910503 original size:53 final size:53
Alignment explanation
Indices: 92910440--92910540 Score: 166
Period size: 53 Copynumber: 1.9 Consensus size: 53
92910430 TATTATGATG
* *
92910440 AAATATTATTTTTTTAATTAATTGTTTATTTATTTAAATCAATTGTTATATTA
1 AAATATTATTTTTTTAATTAATTATTTATATATTTAAATCAATTGTTATATTA
**
92910493 AAATATTATTTTTTTAATTTTTTATTTATATATTTAAATCAATTGTTA
1 AAATATTATTTTTTTAATTAATTATTTATATATTTAAATCAATTGTTA
92910541 CGATGAAATA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
53 44 1.00
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (53 bp):
AAATATTATTTTTTTAATTAATTATTTATATATTTAAATCAATTGTTATATTA
Found at i:92910550 original size:53 final size:52
Alignment explanation
Indices: 92910427--92910551 Score: 160
Period size: 53 Copynumber: 2.3 Consensus size: 52
92910417 GTTTTGAATA
* * *
92910427 AATTATTATGATGAAATATTATTTTTTTAATTAATTGTTTATTTATTTAAATC
1 AATTGTTA-GATGAAATATTATTTTTTTAATTAATTATTTATATATTTAAATC
* * **
92910480 AATTGTTATATTAAAATATTATTTTTTTAATTTTTTATTTATATATTTAAATC
1 AATTGTTAGA-TGAAATATTATTTTTTTAATTAATTATTTATATATTTAAATC
92910533 AATTGTTACGATGAAATAT
1 AATTGTTA-GATGAAATAT
92910552 ATATATATAT
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
52 1 0.02
53 59 0.97
54 1 0.02
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.55
Consensus pattern (52 bp):
AATTGTTAGATGAAATATTATTTTTTTAATTAATTATTTATATATTTAAATC
Found at i:92910566 original size:53 final size:53
Alignment explanation
Indices: 92910464--92910567 Score: 122
Period size: 53 Copynumber: 2.0 Consensus size: 53
92910454 TAATTAATTG
* * * * * *
92910464 TTTATTTATTTAAATCAATTGTTATATTAAAATATTATTTTTTTAATTTTTTA
1 TTTATATATTTAAATCAATTGTTAGATGAAAATATTATATATATAATTTTTTA
92910517 TTTATATATTTAAATCAATTGTTACGATG-AAATA-TATATATATATATTTTT
1 TTTATATATTTAAATCAATTGTTA-GATGAAAATATTATATATATA-ATTTTT
92910568 AATCCATTGT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
52 7 0.16
53 34 0.79
54 2 0.05
ACGTcount: A:0.37, C:0.03, G:0.04, T:0.57
Consensus pattern (53 bp):
TTTATATATTTAAATCAATTGTTAGATGAAAATATTATATATATAATTTTTTA
Found at i:92911702 original size:28 final size:28
Alignment explanation
Indices: 92911662--92911718 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
92911652 AGCTCTCTAC
92911662 TAAGAAAGAGGTCCTCGGTTCAGAATTG
1 TAAGAAAGAGGTCCTCGGTTCAGAATTG
92911690 TAAGAAAGAGGTCCTCGGTTCAGAATTG
1 TAAGAAAGAGGTCCTCGGTTCAGAATTG
92911718 T
1 T
92911719 GCCATGTTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.32, C:0.14, G:0.28, T:0.26
Consensus pattern (28 bp):
TAAGAAAGAGGTCCTCGGTTCAGAATTG
Found at i:92912470 original size:15 final size:16
Alignment explanation
Indices: 92912444--92912473 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
92912434 TCTTAAGCAT
92912444 CTCAGTGAAGATGACA
1 CTCAGTGAAGATGACA
92912460 CTCAG-GAAGATGAC
1 CTCAGTGAAGATGAC
92912474 GATACCTCGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.37, C:0.20, G:0.27, T:0.17
Consensus pattern (16 bp):
CTCAGTGAAGATGACA
Found at i:92922853 original size:45 final size:45
Alignment explanation
Indices: 92922804--92922918 Score: 203
Period size: 45 Copynumber: 2.6 Consensus size: 45
92922794 ACAGTCCAAT
* *
92922804 TGGCGAACAACATAAATAGCGAACAATTCAATTGGCAAACACACG
1 TGGCGAACAACATAAATAGCAAACAATTCAATTGGCAAACACACA
92922849 TGGCGAACAACATAAATAGCAAACAATTCAATTGGCAAACACACA
1 TGGCGAACAACATAAATAGCAAACAATTCAATTGGCAAACACACA
*
92922894 TGGCGAACAACATAAATGGCAAACA
1 TGGCGAACAACATAAATAGCAAACA
92922919 CACGTGACGG
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 67 1.00
ACGTcount: A:0.47, C:0.22, G:0.17, T:0.15
Consensus pattern (45 bp):
TGGCGAACAACATAAATAGCAAACAATTCAATTGGCAAACACACA
Found at i:92932138 original size:16 final size:16
Alignment explanation
Indices: 92932119--92932220 Score: 59
Period size: 16 Copynumber: 6.5 Consensus size: 16
92932109 ACACATGATA
92932119 AACAACATAAATGGCG
1 AACAACATAAATGGCG
* *
92932135 AACAGTC-TAATTGGCG
1 AACA-ACATAAATGGCG
* * *
92932151 AAAAACATAAATGTCA
1 AACAACATAAATGGCG
*** *
92932167 AACAGTTTAATTGGCG
1 AACAACATAAATGGCG
*
92932183 AAC-AC--ACATGGCG
1 AACAACATAAATGGCG
*
92932196 AACAACATAAATTGCG
1 AACAACATAAATGGCG
92932212 AACACACAT
1 AACA-ACAT
92932221 GGTGGACAAT
Statistics
Matches: 60, Mismatches: 20, Indels: 11
0.66 0.22 0.12
Matches are distributed among these distances:
13 9 0.15
14 2 0.03
15 1 0.02
16 43 0.72
17 5 0.08
ACGTcount: A:0.45, C:0.20, G:0.17, T:0.19
Consensus pattern (16 bp):
AACAACATAAATGGCG
Found at i:92932159 original size:32 final size:32
Alignment explanation
Indices: 92932122--92932184 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
92932112 CATGATAAAC
*
92932122 AACATAAATGGCGAACAGTCTAATTGGCGAAA
1 AACATAAATGGCAAACAGTCTAATTGGCGAAA
* *
92932154 AACATAAATGTCAAACAGTTTAATTGGCGAA
1 AACATAAATGGCAAACAGTCTAATTGGCGAA
92932185 CACACATGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.44, C:0.14, G:0.19, T:0.22
Consensus pattern (32 bp):
AACATAAATGGCAAACAGTCTAATTGGCGAAA
Found at i:92943567 original size:29 final size:31
Alignment explanation
Indices: 92943536--92943593 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
92943526 ATAAATTAAT
*
92943536 AAAA-ATAA-AATTATATTTTAATTTTTTTTA
1 AAAATATAATAATT-TAATTTAATTTTTTTTA
92943566 AAAATATAATAATTTAATTTAATTTTTT
1 AAAATATAATAATTTAATTTAATTTTTT
92943594 AAAAATTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
30 4 0.16
31 17 0.68
32 4 0.16
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (31 bp):
AAAATATAATAATTTAATTTAATTTTTTTTA
Found at i:92952271 original size:35 final size:35
Alignment explanation
Indices: 92952205--92952371 Score: 185
Period size: 35 Copynumber: 4.6 Consensus size: 35
92952195 CATGGCAAAG
92952205 TGTGAAATGTAGGTATGGTA-TATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATTATCCATACTGAGT
*
92952239 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATTATCCATACTGAGT
92952274 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTA-T-T---ATCCATACTGAGT
** * *
92952314 TAAGAAATGTAGGTATGGCATT-TCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATTAT-CCATACTGAGT
***
92952349 TAAAAAAATGTAGGTATGGTATT
1 T-GTGAAATGTAGGTATGGTATT
92952372 TCAATGAGGA
Statistics
Matches: 117, Mismatches: 8, Indels: 14
0.84 0.06 0.10
Matches are distributed among these distances:
34 21 0.18
35 44 0.38
36 20 0.17
37 1 0.01
38 1 0.01
39 1 0.01
40 29 0.25
ACGTcount: A:0.32, C:0.10, G:0.24, T:0.34
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATTATCCATACTGAGT
Found at i:92952294 original size:40 final size:40
Alignment explanation
Indices: 92952216--92952331 Score: 122
Period size: 40 Copynumber: 3.0 Consensus size: 40
92952206 GTGAAATGTA
92952216 GGTATGGTA-TATCCATACTGAGTTGTGAAA--T--GTA-
1 GGTATGGTATTATCCATACTGAGTTGTGAAATGTAGGTAT
*
92952250 GGTATGGTATTATCCATACTGAGCTGTGAAATGTAGGTAT
1 GGTATGGTATTATCCATACTGAGTTGTGAAATGTAGGTAT
* **
92952290 GGTAT--TATCAAATCCATACTGAGTTAAGAAATGTAGGTAT
1 GGTATGGTAT--TATCCATACTGAGTTGTGAAATGTAGGTAT
92952330 GG
1 GG
92952332 CATTTCCCAT
Statistics
Matches: 69, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
34 9 0.13
35 20 0.29
37 1 0.01
38 3 0.04
39 3 0.04
40 33 0.48
ACGTcount: A:0.31, C:0.09, G:0.26, T:0.34
Consensus pattern (40 bp):
GGTATGGTATTATCCATACTGAGTTGTGAAATGTAGGTAT
Found at i:92952328 original size:75 final size:75
Alignment explanation
Indices: 92952205--92952375 Score: 196
Period size: 75 Copynumber: 2.4 Consensus size: 75
92952195 CATGGCAAAG
** *
92952205 TGTGAAATGTAGGTATGG---TAT---ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
92952263 CCATACTGAGC
65 CCATACCGAGC
92952274 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
92952339 CATACCGAGT
66 CATACCGAGC
***
92952349 TAAAAAAATGTAGGTATGGTATT-TCAA
1 T-GTGAAATGTAGGTATGGTATTATCAA
92952376 TGAGGAAAAC
Statistics
Matches: 86, Mismatches: 8, Indels: 10
0.83 0.08 0.10
Matches are distributed among these distances:
69 18 0.21
72 3 0.03
74 1 0.01
75 46 0.53
76 18 0.21
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:92959338 original size:75 final size:75
Alignment explanation
Indices: 92959219--92959390 Score: 205
Period size: 75 Copynumber: 2.4 Consensus size: 75
92959209 CATGGCAAAG
** *
92959219 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
92959278 CCATACTGAGC
65 CCATACCGAGC
92959289 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
92959354 CATACCGAGT
66 CATACCGAGC
***
92959364 TAAAAAAATGTAGGTATGGTATT-TCAA
1 T-GTGAAATGTAGGTATGGTATTATCAA
92959391 TGAGGAAAAC
Statistics
Matches: 87, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
70 18 0.21
73 4 0.05
74 1 0.01
75 46 0.53
76 18 0.21
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:92959357 original size:35 final size:35
Alignment explanation
Indices: 92959222--92959388 Score: 167
Period size: 35 Copynumber: 4.6 Consensus size: 35
92959212 GGCAAAGTGT
* **
92959222 GAAATGTAGGTATGGTATCAT-CCATACTGAGTTGT
1 GAAATGTAGGTATGGTAT-TTCCCATACTGAGTTAA
* **
92959257 GAAATGTAGGTATGGTATTAT-CCATACTGAGCTGT
1 GAAATGTAGGTATGGTATT-TCCCATACTGAGTTAA
92959292 GAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAA
1 GAAATGTAGGTATGGTATT-TC----CCATACTGAGTTAA
* *
92959332 GAAATGTAGGTATGGCATTTCCCATACCGAGTTAAA
1 GAAATGTAGGTATGGTATTTCCCATACTGAGTT-AA
*
92959368 AAAATGTAGGTATGGTATTTC
1 GAAATGTAGGTATGGTATTTC
92959389 AATGAGGAAA
Statistics
Matches: 116, Mismatches: 9, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
35 64 0.55
36 21 0.18
39 2 0.02
40 29 0.25
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.33
Consensus pattern (35 bp):
GAAATGTAGGTATGGTATTTCCCATACTGAGTTAA
Found at i:92959380 original size:36 final size:35
Alignment explanation
Indices: 92959318--92959388 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 35
92959308 ATTATCAAAT
* *
92959318 CCATACTGAGTTAAGAAATGTAGGTATGGCATTTC
1 CCATACCGAGTTAAAAAATGTAGGTATGGCATTTC
*
92959353 CCATACCGAGTTAAAAAAATGTAGGTATGGTATTTC
1 CCATACCGAGTT-AAAAAATGTAGGTATGGCATTTC
92959389 AATGAGGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 11 0.34
36 21 0.66
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (35 bp):
CCATACCGAGTTAAAAAATGTAGGTATGGCATTTC
Found at i:92962411 original size:101 final size:102
Alignment explanation
Indices: 92962262--92962694 Score: 549
Period size: 105 Copynumber: 4.2 Consensus size: 102
92962252 ATTGGTATAC
* * * * *
92962262 AAAATACAAG-TTTAAAAAAAAAATTGGTGTTGGCTTGTCAATGGCCGGCACCAAGTACAAAAAA
1 AAAATACGAGTTTTAAAAAAAAATTTGGTGCTAGCCTGTCAATGGCCGGCACCAAGTACAAAAAA
*
92962326 AAA-TCAA-TTTTTTTAAAAAAAAATTTTGCTCTCCG
66 AAATTCAATTTTTTTTAAAAAAAAATTTTGCTCTCCA
* *
92962361 AAAATACGAG-TTTAAAAAAAAATTTTGAGTGCTGGCCTGTCAATGACCGGCACCAAGTAC-AAA
1 AAAATACGAGTTTTAAAAAAAAA-TTTG-GTGCTAGCCTGTCAATGGCCGGCACCAAGTACAAAA
* *
92962424 AAAAA-TCAA-TTTTTTTAAAAGAAAATTTCGCTCTCCA
64 AAAAATTCAATTTTTTTTAAAAAAAAATTTTGCTCTCCA
* *
92962461 AAAATACGAGTTTTAAAAAAAAATTGGGTGCTAGCCTGTCAATGGCCGGCACCCAGTACCAAAAA
1 AAAATACGAGTTTTAAAAAAAAATTTGGTGCTAGCCTGTCAATGGCCGGCACCAAGTA-CAAAAA
92962526 AAAATTCAAAATTTTTTTTAAAAAAAAATTTTGCTCTCCA
65 AAAATTC--AATTTTTTTTAAAAAAAAATTTTGCTCTCCA
* *
92962566 AAAATATGAGTTTTAAAAAAAAATTAGGTGCTAGCCTGTCAATGGCCGGCACCAAGTA-AAAAAA
1 AAAATACGAGTTTTAAAAAAAAATTTGGTGCTAGCCTGTCAATGGCCGGCACCAAGTACAAAAAA
* *** * * *
92962630 AAATTTAAGTTTTGTTTTAAAAAAGTTTTTTTGCTGTTCG
66 AAATTCAA-TTTT-TTTTAAAAAA-AAATTTTGCTCTCCA
92962670 AAAATACGAGTTTTAAAAAAAAATT
1 AAAATACGAGTTTTAAAAAAAAATT
92962695 GAATTTTTTG
Statistics
Matches: 297, Mismatches: 25, Indels: 19
0.87 0.07 0.06
Matches are distributed among these distances:
99 49 0.16
100 54 0.18
101 51 0.17
102 6 0.02
103 21 0.07
104 35 0.12
105 81 0.27
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.29
Consensus pattern (102 bp):
AAAATACGAGTTTTAAAAAAAAATTTGGTGCTAGCCTGTCAATGGCCGGCACCAAGTACAAAAAA
AAATTCAATTTTTTTTAAAAAAAAATTTTGCTCTCCA
Found at i:92979545 original size:29 final size:29
Alignment explanation
Indices: 92979503--92979560 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
92979493 ATATAACCAA
92979503 ACTTGTACCGCAAGTAACAATTCTCAAGT
1 ACTTGTACCGCAAGTAACAATTCTCAAGT
92979532 ACTTGTACCGCAAGTAACAATTCTCAAGT
1 ACTTGTACCGCAAGTAACAATTCTCAAGT
92979561 CTTCAATTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (29 bp):
ACTTGTACCGCAAGTAACAATTCTCAAGT
Found at i:92983198 original size:18 final size:18
Alignment explanation
Indices: 92983175--92983210 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
92983165 AACTTTCCTA
*
92983175 AATAAAGCAGTAGAATCC
1 AATAAAGCAGCAGAATCC
92983193 AATAAAGCAGCAGAATCC
1 AATAAAGCAGCAGAATCC
92983211 CATTATGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.50, C:0.19, G:0.17, T:0.14
Consensus pattern (18 bp):
AATAAAGCAGCAGAATCC
Found at i:92994633 original size:38 final size:38
Alignment explanation
Indices: 92994471--92994631 Score: 209
Period size: 38 Copynumber: 4.2 Consensus size: 38
92994461 GACCAATCGA
* * * *
92994471 AACATGCCAGTTTGCTCATAAGAGCTATTACACCCAAT
1 AACACGCCAGTTTGCTCATAAGAGCTATTCCATCCGAT
*
92994509 AACACACCAGTTTGCTCATAAGAGCTA-TCTCATCCGAT
1 AACACGCCAGTTTGCTCATAAGAGCTATTC-CATCCGAT
*
92994547 AACACGCCAGTTTGCTTATAAGAGCTATTCCA-CCTGAT
1 AACACGCCAGTTTGCTCATAAGAGCTATTCCATCC-GAT
* * *
92994585 AACACGCCAATTTTCTCATAAGAGTTATTCCATCCGAT
1 AACACGCCAGTTTGCTCATAAGAGCTATTCCATCCGAT
92994623 AACACGCCA
1 AACACGCCA
92994632 ATATATTTGT
Statistics
Matches: 108, Mismatches: 11, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
37 3 0.03
38 101 0.94
39 4 0.04
ACGTcount: A:0.32, C:0.28, G:0.13, T:0.27
Consensus pattern (38 bp):
AACACGCCAGTTTGCTCATAAGAGCTATTCCATCCGAT
Found at i:92996029 original size:21 final size:20
Alignment explanation
Indices: 92995986--92996030 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
92995976 GATTTACATG
*
92995986 ATGAATGTAGAATCATAGGT
1 ATGAATGTAGAATCATAGAT
* *
92996006 ATGATATGTAGAATTATATAT
1 ATGA-ATGTAGAATCATAGAT
92996027 ATGA
1 ATGA
92996031 CATAAATGTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.42, C:0.02, G:0.20, T:0.36
Consensus pattern (20 bp):
ATGAATGTAGAATCATAGAT
Found at i:92998368 original size:6 final size:6
Alignment explanation
Indices: 92998359--92998452 Score: 59
Period size: 6 Copynumber: 15.7 Consensus size: 6
92998349 TTTCTCTTTC
* * * * * *
92998359 TCTTCT TCTTCT CCTTCA CCTTCC TCTTCT TCCTCT AT-TTCT TCTGCT
1 TCTTCT TCTTCT TCTTCT TCTTCT TCTTCT TCTTCT -TCTTCT TCTTCT
* * *
92998407 TCTTCT TCATCT GCTTCT TCTTCT GCTT-T GTC-TCT CTCTTCT TCTT
1 TCTTCT TCTTCT TCTTCT TCTTCT TCTTCT -TCTTCT -TCTTCT TCTT
92998453 TCTCCATGCC
Statistics
Matches: 67, Mismatches: 16, Indels: 10
0.72 0.17 0.11
Matches are distributed among these distances:
5 3 0.04
6 60 0.90
7 4 0.06
ACGTcount: A:0.03, C:0.36, G:0.04, T:0.56
Consensus pattern (6 bp):
TCTTCT
Found at i:92998419 original size:15 final size:15
Alignment explanation
Indices: 92998401--92998429 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
92998391 CTCTATTTCT
92998401 TCTGCTTCTTCTTCA
1 TCTGCTTCTTCTTCA
92998416 TCTGCTTCTTCTTC
1 TCTGCTTCTTCTTC
92998430 TGCTTTGTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.03, C:0.34, G:0.07, T:0.55
Consensus pattern (15 bp):
TCTGCTTCTTCTTCA
Found at i:93004284 original size:2 final size:2
Alignment explanation
Indices: 93004277--93004307 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
93004267 ATCATGGGTA
93004277 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
93004308 TTCTTTACAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:93006594 original size:11 final size:11
Alignment explanation
Indices: 93006578--93006603 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
93006568 TCTCAATTTA
93006578 AAAAAAAAAAG
1 AAAAAAAAAAG
93006589 AAAAAAAAAAG
1 AAAAAAAAAAG
93006600 AAAA
1 AAAA
93006604 CCCAGTGCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:93008425 original size:15 final size:16
Alignment explanation
Indices: 93008405--93008438 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
93008395 AAATTAAAAC
93008405 TTTATATAT-AATTAT
1 TTTATATATAAATTAT
*
93008420 TTTATATTTAAATTAT
1 TTTATATATAAATTAT
93008436 TTT
1 TTT
93008439 TTCCATTAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTATATATAAATTAT
Found at i:93009274 original size:5 final size:5
Alignment explanation
Indices: 93009264--93009322 Score: 109
Period size: 5 Copynumber: 11.8 Consensus size: 5
93009254 AGTATAAATA
*
93009264 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAC TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
93009314 TATAT TATA
1 TATAT TATA
93009323 ATAGTTTAAT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 52 1.00
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.58
Consensus pattern (5 bp):
TATAT
Found at i:93009395 original size:17 final size:16
Alignment explanation
Indices: 93009369--93009404 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
93009359 AAGAAAAAAA
93009369 AGAATGAAAAAGAAAC
1 AGAATGAAAAAGAAAC
*
93009385 AGAATTGAAAACGAAAC
1 AGAA-TGAAAAAGAAAC
93009402 AGA
1 AGA
93009405 GAAGGAGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.64, C:0.08, G:0.19, T:0.08
Consensus pattern (16 bp):
AGAATGAAAAAGAAAC
Found at i:93014921 original size:17 final size:20
Alignment explanation
Indices: 93014878--93014918 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
93014868 ATTGTTACTG
93014878 TTTTGTTGTTATTATATAAC
1 TTTTGTTGTTATTATATAAC
*
93014898 TTTTGTT-TTATTGT-TAAC
1 TTTTGTTGTTATTATATAAC
93014916 TTT
1 TTT
93014919 GTTACTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 7 0.35
19 6 0.30
20 7 0.35
ACGTcount: A:0.20, C:0.05, G:0.10, T:0.66
Consensus pattern (20 bp):
TTTTGTTGTTATTATATAAC
Found at i:93019934 original size:3 final size:3
Alignment explanation
Indices: 93019926--93019983 Score: 50
Period size: 3 Copynumber: 19.7 Consensus size: 3
93019916 CTTTATTAAA
* * *
93019926 TAT TAT TAT TAT TAT T-T CTAA TAT TAT TAT CAA TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT
93019971 T-T T-T TAT ATAT TA
1 TAT TAT TAT -TAT TA
93019984 GTGTATGTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
2 5 0.11
3 37 0.82
4 3 0.07
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:93020585 original size:3 final size:3
Alignment explanation
Indices: 93020579--93020608 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
93020569 TGTGCTTTAA
*
93020579 TAT TAT TAC TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
93020609 CATTGTTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:93020945 original size:17 final size:17
Alignment explanation
Indices: 93020925--93020971 Score: 67
Period size: 17 Copynumber: 2.7 Consensus size: 17
93020915 ATGTTCATTT
93020925 TATATATATTATGTATA
1 TATATATATTATGTATA
*
93020942 TATATATATTATGTATG
1 TATATATATTATGTATA
*
93020959 TATTTAGTATTAT
1 TATATA-TATTAT
93020972 CATGTGTACG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 21 0.78
18 6 0.22
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (17 bp):
TATATATATTATGTATA
Found at i:93020976 original size:21 final size:21
Alignment explanation
Indices: 93020925--93020976 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
93020915 ATGTTCATTT
93020925 TATATAT-AT-TATGTATATA
1 TATATATCATGTATGTATATA
* *
93020944 TATATATTATGTATGTATTTA
1 TATATATCATGTATGTATATA
93020965 GTAT-TATCATGT
1 -TATATATCATGT
93020977 GTACGTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 7 0.25
20 2 0.07
21 16 0.57
22 3 0.11
ACGTcount: A:0.35, C:0.02, G:0.10, T:0.54
Consensus pattern (21 bp):
TATATATCATGTATGTATATA
Found at i:93021021 original size:2 final size:2
Alignment explanation
Indices: 93021014--93021084 Score: 133
Period size: 2 Copynumber: 35.5 Consensus size: 2
93021004 ACATATTTTA
*
93021014 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AG AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
93021056 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 A
93021085 GCACTATTAG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 67 1.00
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (2 bp):
AT
Found at i:93024560 original size:11 final size:11
Alignment explanation
Indices: 93024530--93024564 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
93024520 ATCTTCTTTA
* *
93024530 TTATTTTACTC
1 TTATTTTATTT
93024541 TTATTTTATTT
1 TTATTTTATTT
93024552 TTATTTTATTT
1 TTATTTTATTT
93024563 TT
1 TT
93024565 TTCCCCTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.77
Consensus pattern (11 bp):
TTATTTTATTT
Found at i:93024622 original size:13 final size:13
Alignment explanation
Indices: 93024604--93024658 Score: 56
Period size: 13 Copynumber: 4.0 Consensus size: 13
93024594 TACATACATC
93024604 ATAATAAAAAAAT
1 ATAATAAAAAAAT
*
93024617 ATAATAAAAATAT
1 ATAATAAAAAAAT
*
93024630 ATATACAAAACAAAT
1 ATA-ATAAAA-AAAT
*
93024645 ATTAAAAAAAAAAT
1 A-TAATAAAAAAAT
93024659 TTACCTTTTC
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
13 15 0.43
14 9 0.26
15 9 0.26
16 2 0.06
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.24
Consensus pattern (13 bp):
ATAATAAAAAAAT
Found at i:93025275 original size:3 final size:3
Alignment explanation
Indices: 93025267--93025306 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
93025257 TGTATTTCAA
*
93025267 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
93025307 GTACGTTAGT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:93025415 original size:3 final size:3
Alignment explanation
Indices: 93025407--93025465 Score: 109
Period size: 3 Copynumber: 19.7 Consensus size: 3
93025397 TGTATTTCAA
93025407 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
93025455 TAT TAT CAT TA
1 TAT TAT TAT TA
93025466 ACATTACTAT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:93025879 original size:22 final size:21
Alignment explanation
Indices: 93025846--93025888 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
93025836 GTATACGTTC
*
93025846 TATATATGTTATATATATATT
1 TATATATCTTATATATATATT
*
93025867 TATATTATCTTATGTATATATT
1 TATA-TATCTTATATATATATT
93025889 ACCTTATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.58
Consensus pattern (21 bp):
TATATATCTTATATATATATT
Found at i:93027819 original size:2 final size:2
Alignment explanation
Indices: 93027812--93027841 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
93027802 TACAAATAAT
93027812 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
93027842 AAAGCACATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:93028082 original size:23 final size:23
Alignment explanation
Indices: 93028054--93028108 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 23
93028044 TGGGTAACTA
93028054 ATTTTTACAAGT-TTTTTTTAATG
1 ATTTTT-CAAGTGTTTTTTTAATG
*
93028077 ATTTTTCATGTGTTTTTTTAATG
1 ATTTTTCAAGTGTTTTTTTAATG
93028100 CAATTTTTC
1 --ATTTTTC
93028109 GAAAGAGAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
22 4 0.14
23 17 0.61
25 7 0.25
ACGTcount: A:0.22, C:0.07, G:0.09, T:0.62
Consensus pattern (23 bp):
ATTTTTCAAGTGTTTTTTTAATG
Found at i:93028358 original size:2 final size:2
Alignment explanation
Indices: 93028351--93028383 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
93028341 AAATGTTCAC
93028351 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 A
93028384 AAATATTCCG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:93029873 original size:31 final size:31
Alignment explanation
Indices: 93029838--93029901 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
93029828 CTTAACAGCC
* * *
93029838 TAGTGATTTAAATAAAAATTTTTGAATAGTT
1 TAGTGACTTAAATAAAAATTTTCGAATAATT
* *
93029869 TAGTGGCTTAAATGAAAATTTTCGAATAATT
1 TAGTGACTTAAATAAAAATTTTCGAATAATT
93029900 TA
1 TA
93029902 TTATTTATTA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.41, C:0.03, G:0.14, T:0.42
Consensus pattern (31 bp):
TAGTGACTTAAATAAAAATTTTCGAATAATT
Found at i:93039757 original size:3 final size:3
Alignment explanation
Indices: 93039749--93039819 Score: 142
Period size: 3 Copynumber: 23.7 Consensus size: 3
93039739 AGATTTAAAA
93039749 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
93039797 AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AA
93039820 AGGTTTACTG
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 68 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:93043143 original size:24 final size:26
Alignment explanation
Indices: 93043102--93043150 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
93043092 TGCTGCAAAT
**
93043102 TTTTTTTGACAAGTGCAAC-ATCACC
1 TTTTTTTGACAACAGCAACAATCACC
93043127 TTTTTTT-ACAACAGCAACAATCAC
1 TTTTTTTGACAACAGCAACAATCAC
93043151 TTTCCATTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 9 0.43
25 12 0.57
ACGTcount: A:0.33, C:0.24, G:0.08, T:0.35
Consensus pattern (26 bp):
TTTTTTTGACAACAGCAACAATCACC
Found at i:93044438 original size:3 final size:3
Alignment explanation
Indices: 93044425--93044507 Score: 59
Period size: 3 Copynumber: 27.3 Consensus size: 3
93044415 GAGGGCATAT
93044425 ATA AT- ATA ATA ATA AT- ATAA ATA ATA ATA TATA CATGA GA-A ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A -ATA ATA
* *
93044469 ATA ATA ATA AT- ATAA ATA ATA GTA AAA ATA ATA A-A ATA A
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA A
93044508 AAAAATAAAA
Statistics
Matches: 65, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
2 9 0.14
3 45 0.69
4 9 0.14
5 2 0.03
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:93044449 original size:12 final size:12
Alignment explanation
Indices: 93044425--93044508 Score: 75
Period size: 12 Copynumber: 6.8 Consensus size: 12
93044415 GAGGGCATAT
93044425 ATAATAT-AATA
1 ATAATATAAATA
93044436 ATAATATAAATA
1 ATAATATAAATA
93044448 ATAATATATACATGA
1 ATAATATA-A-AT-A
93044463 GA-AATA-ATAATA
1 -ATAATATA-AATA
93044475 ATAATATAAATA
1 ATAATATAAATA
* *
93044487 ATAGTAAAAATA
1 ATAATATAAATA
*
93044499 ATAAAATAAA
1 ATAATATAAA
93044509 AAAATAAAAC
Statistics
Matches: 61, Mismatches: 5, Indels: 13
0.77 0.06 0.16
Matches are distributed among these distances:
11 8 0.13
12 38 0.62
13 4 0.07
14 5 0.08
15 5 0.08
16 1 0.02
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (12 bp):
ATAATATAAATA
Found at i:93044469 original size:21 final size:18
Alignment explanation
Indices: 93044430--93044489 Score: 75
Period size: 18 Copynumber: 3.2 Consensus size: 18
93044420 CATATATAAT
*
93044430 ATAATAATAATATAAATA
1 ATAATAATAATAGAAATA
93044448 ATAATATATACATGAGAAATA
1 ATAATA-ATA-AT-AGAAATA
*
93044469 ATAATAATAATATAAATA
1 ATAATAATAATAGAAATA
93044487 ATA
1 ATA
93044490 GTAAAAATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
18 15 0.41
19 5 0.14
20 5 0.14
21 12 0.32
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (18 bp):
ATAATAATAATAGAAATA
Found at i:93045387 original size:41 final size:42
Alignment explanation
Indices: 93045324--93045409 Score: 111
Period size: 41 Copynumber: 2.1 Consensus size: 42
93045314 AGACACGTGA
* *
93045324 CTTCAATTAATTCCACTAAAACTTTAAGGAGATCTGCTGTAG
1 CTTCAATTAATTCCACTAAAACTTCAAGGAAATCTGCTGTAG
* * * *
93045366 CTTCGATTAA-TCCACTGAAACTTCAAGGAAATCTGTTGTGG
1 CTTCAATTAATTCCACTAAAACTTCAAGGAAATCTGCTGTAG
93045407 CTT
1 CTT
93045410 TTAGCTGCTC
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
41 29 0.76
42 9 0.24
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (42 bp):
CTTCAATTAATTCCACTAAAACTTCAAGGAAATCTGCTGTAG
Found at i:93045488 original size:68 final size:68
Alignment explanation
Indices: 93045375--93045645 Score: 461
Period size: 68 Copynumber: 4.0 Consensus size: 68
93045365 GCTTCGATTA
* * *
93045375 ATCCACTGAAACTTCAAGGAAATCTGTTGTGGCTTTTAGCTGCTCCAACGCCATTTCAGGGAGAA
1 ATCCACTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAGAA
93045440 GAG
66 GAG
* * *
93045443 ATTCACTGAAACTTCAAGGAGATCTGTTGTGGCTTTTAGCCGCTCCAACGCCATATCAGGGAGAA
1 ATCCACTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAGAA
93045508 GAG
66 GAG
* *
93045511 ATCCACTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACGCTATTTCAGGGAAAA
1 ATCCACTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAGAA
93045576 GAG
66 GAG
*
93045579 ATCCACTGAAACTTCAAGGAGATCTACTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAGAA
1 ATCCACTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAGAA
93045644 GA
66 GA
93045646 TATTTGATTT
Statistics
Matches: 191, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
68 191 1.00
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.25
Consensus pattern (68 bp):
ATCCACTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAGAA
GAG
Found at i:93045732 original size:44 final size:43
Alignment explanation
Indices: 93045656--93045779 Score: 133
Period size: 44 Copynumber: 2.8 Consensus size: 43
93045646 TATTTGATTT
* **
93045656 TCAACCTGTTACCCTACTGCTTA-AGGGGTTAAGGCTTGTTATCA
1 TCAACCTGTTACCCTACTGCTTAGA-GGTTTAAGGCTTG-TAAAA
** * * *
93045700 TTGATCTGTTTCCCTACTGCTTAGAGGTTTAAGATCTTGTAAAA
1 TCAACCTGTTACCCTACTGCTTAGAGGTTTAAG-GCTTGTAAAA
*
93045744 TCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCT
1 TCAACCTGTTACCCTACTGCTTAGAGGTTTAAGGCT
93045780 CATCGCCTTC
Statistics
Matches: 64, Mismatches: 14, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
43 2 0.03
44 57 0.89
45 5 0.08
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.36
Consensus pattern (43 bp):
TCAACCTGTTACCCTACTGCTTAGAGGTTTAAGGCTTGTAAAA
Found at i:93045795 original size:88 final size:86
Alignment explanation
Indices: 93045656--93045916 Score: 281
Period size: 87 Copynumber: 3.0 Consensus size: 86
93045646 TATTTGATTT
** * * *
93045656 TCAACCTGTTACCCTACTGCTTAAGGGG-TTAAGGCTTGTTATCATTGATCTGTTTCCCTACTGC
1 TCAACCTGTTACCCTACTGCTT-AGGGGTTTAAGGCTCATCA-CCTTAATCTGTTTCCCTACTGC
*
93045720 TTAGAGGTTTAAGATCTTGTAAAA
64 TTAGAGGGTTAAGATC-TGTAAAA
*
93045744 TCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCTCATCGCCTTCAATCTGTTTCCCTACTGCT
1 TCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCTCATCACCTT-AATCTGTTTCCCTACTGCT
* *
93045809 TAGGGGGTTAAGATCTGTAAAT
65 TAGAGGGTTAAGATCTGTAAAA
* ** * * ** * *
93045831 TTAGTCTGTTACCCTACTGTTTAGGGTTTTAAAACTCATCATCTTTAATCTGCTTCCCTACTGCT
1 TCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCTCATCA-CCTTAATCTGTTTCCCTACTGCT
* **
93045896 TAGGGGGTTGCGATCTGTAAA
65 TAGAGGGTTAAGATCTGTAAA
93045917 TCTTCAATCT
Statistics
Matches: 149, Mismatches: 21, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
87 84 0.56
88 65 0.44
ACGTcount: A:0.22, C:0.21, G:0.20, T:0.37
Consensus pattern (86 bp):
TCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCTCATCACCTTAATCTGTTTCCCTACTGCTT
AGAGGGTTAAGATCTGTAAAA
Found at i:93046068 original size:43 final size:43
Alignment explanation
Indices: 93046018--93046172 Score: 168
Period size: 44 Copynumber: 3.6 Consensus size: 43
93046008 TTTAAGCCTA
* * *
93046018 TTACCCTACTACTTAGGGGGTTAAGGTCTATAAATTTGGCTTG
1 TTACCCTACTGCTTAGGGGGTTAAGATCTATAAATTTAGCTTG
* * * *
93046061 TTACCCTACTGCTTAGGGGGTTAAAGAT-TATTATTTTCGATCTG
1 TTACCCTACTGCTTAGGGGGTT-AAGATCTATAAATTTAGCT-TG
* * * * *
93046105 TTTCCCTACTGCTTAGGGTGATAAGATCTATGAACTTCAGCTTG
1 TTACCCTACTGCTTAGGGGGTTAAGATCTAT-AAATTTAGCTTG
93046149 TTACCCTACTGCTTAGGGGGTTAA
1 TTACCCTACTGCTTAGGGGGTTAA
93046173 AGCTCGTTGC
Statistics
Matches: 91, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
43 35 0.38
44 51 0.56
45 5 0.05
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.37
Consensus pattern (43 bp):
TTACCCTACTGCTTAGGGGGTTAAGATCTATAAATTTAGCTTG
Found at i:93046188 original size:88 final size:85
Alignment explanation
Indices: 93046015--93046229 Score: 232
Period size: 88 Copynumber: 2.5 Consensus size: 85
93046005 AATTTTAAGC
* * * * **
93046015 CTATTACCCTACTACTTAGGGGGTTAAGGTCTATAAATTTGGCTTGTTACCCTACTGCTTAGGGG
1 CTATTCCCCTACTGCTTA-GGGG-TAAGATCTATGAATTCAGCTTGTTACCCTACTGCTTAGGGG
* **
93046080 GTTAAAGATTATTATTTTCGAT
64 GTTAAAGATCATTACCTTCGAT
* *
93046102 CTGTTTCCCTACTGCTTAGGGTGATAAGATCTATGAACTTCAGCTTGTTACCCTACTGCTTAGGG
1 CTATTCCCCTACTGCTTAGGG-G-TAAGATCTATGAA-TTCAGCTTGTTACCCTACTGCTTAGGG
* * *
93046167 GGTTAAAGCTCGTTGCCTTCGAT
63 GGTTAAAGATCATTACCTTCGAT
* *
93046190 CTATTCCCCTATTGCTTATGGGGTAAGATCTGTGAATTCA
1 CTATTCCCCTACTGCTTA-GGGGTAAGATCTATGAATTCA
93046230 CTGATTCTAG
Statistics
Matches: 107, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
86 7 0.07
87 39 0.36
88 58 0.54
89 3 0.03
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.37
Consensus pattern (85 bp):
CTATTCCCCTACTGCTTAGGGGTAAGATCTATGAATTCAGCTTGTTACCCTACTGCTTAGGGGGT
TAAAGATCATTACCTTCGAT
Found at i:93056739 original size:19 final size:19
Alignment explanation
Indices: 93056701--93056738 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
93056691 TAAAGTAAAG
*
93056701 TAAATAATAATACTATATA
1 TAAAAAATAATACTATATA
93056720 TAAAAAAT-ATA-TATATA
1 TAAAAAATAATACTATATA
93056737 TA
1 TA
93056739 TGTATATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 8 0.44
18 3 0.17
19 7 0.39
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (19 bp):
TAAAAAATAATACTATATA
Found at i:93056994 original size:3 final size:3
Alignment explanation
Indices: 93056986--93057178 Score: 68
Period size: 3 Copynumber: 63.3 Consensus size: 3
93056976 AATAGGGGTG
* *
93056986 ATA ATA ATA ATA ATA CTA ATA CA-A ACA ATA AT- ATA TATA TATA TATA
1 ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA -ATA -ATA -ATA
* * * * *
93057033 ATA ATA GTA GTCA GA-A ATA A-A A-A ATA ATA GA-A GTA ACA ATA ATG
1 ATA ATA ATA AT-A -ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA
* *
93057077 ATA ATA ATA AT- ATAA ATA A-A TATG GTA ATA ATA AT- ATAA ATA ATA
1 ATA ATA ATA ATA AT-A ATA ATA -ATA ATA ATA ATA ATA AT-A ATA ATA
* *
93057122 ATA TATA CATGA GA-A ATA ATA ATA ATA AT- ATAA ATA ATA GTA AAA
1 ATA -ATA -AT-A -ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA
93057167 ATA ATA A-A ATA A
1 ATA ATA ATA ATA A
93057179 AAAAAATAAA
Statistics
Matches: 147, Mismatches: 21, Indels: 44
0.69 0.10 0.21
Matches are distributed among these distances:
2 18 0.12
3 102 0.69
4 25 0.17
5 2 0.01
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:93057095 original size:36 final size:36
Alignment explanation
Indices: 93057065--93057170 Score: 99
Period size: 39 Copynumber: 2.9 Consensus size: 36
93057055 AATAATAGAA
93057065 GTAACAATAATGAT-AATAATAATATAAATAAATATG
1 GTAACAATAAT-ATAAATAATAATATAAATAAATATG
* *
93057101 GTAATAATAATATAAATAATAATATATACATGAGAA-ATA
1 GTAACAATAATATAAATAATAATATA-A-AT-A-AATATG
* * * *
93057140 ATAATAATAATATAAATAATAGTAAAAATAA
1 GTAACAATAATATAAATAATAATATAAATAA
93057171 TAAAATAAAA
Statistics
Matches: 60, Mismatches: 5, Indels: 11
0.79 0.07 0.14
Matches are distributed among these distances:
35 3 0.05
36 23 0.38
37 3 0.05
38 3 0.05
39 26 0.43
40 2 0.03
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.30
Consensus pattern (36 bp):
GTAACAATAATATAAATAATAATATAAATAAATATG
Found at i:93057120 original size:39 final size:39
Alignment explanation
Indices: 93057077--93057160 Score: 109
Period size: 39 Copynumber: 2.2 Consensus size: 39
93057067 AACAATAATG
**
93057077 ATAATAATAATATAAAT-A-AATATGGTAATAATAATATAA
1 ATAATAAT-ATATAAATGAGAA-ATAATAATAATAATATAA
*
93057116 ATAATAATATATACATGAGAAATAATAATAATAATATAA
1 ATAATAATATATAAATGAGAAATAATAATAATAATATAA
93057155 ATAATA
1 ATAATA
93057161 GTAAAAATAA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
38 7 0.17
39 31 0.77
40 2 0.05
ACGTcount: A:0.62, C:0.01, G:0.05, T:0.32
Consensus pattern (39 bp):
ATAATAATATATAAATGAGAAATAATAATAATAATATAA
Found at i:93057157 original size:12 final size:12
Alignment explanation
Indices: 93057070--93057179 Score: 77
Period size: 12 Copynumber: 8.9 Consensus size: 12
93057060 TAGAAGTAAC
93057070 AATAATGAT-AAT
1 AATAAT-ATAAAT
93057082 AATAATATAAAT
1 AATAATATAAAT
*
93057094 -A-AATATGGTAAT
1 AATAATAT--AAAT
93057106 AATAATATAAAT
1 AATAATATAAAT
93057118 AATAATATATACAT
1 AATAATATA-A-AT
93057132 GAGA-AATA-ATAAT
1 -A-ATAATATA-AAT
93057145 AATAATATAAAT
1 AATAATATAAAT
* *
93057157 AATAGTAAAAAT
1 AATAATATAAAT
*
93057169 AATAAAATAAA
1 AATAATATAAA
93057180 AAAAATAAAA
Statistics
Matches: 80, Mismatches: 7, Indels: 22
0.73 0.06 0.20
Matches are distributed among these distances:
10 5 0.06
11 4 0.05
12 50 0.62
13 5 0.06
14 10 0.12
15 5 0.06
16 1 0.01
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.30
Consensus pattern (12 bp):
AATAATATAAAT
Found at i:93061129 original size:6 final size:6
Alignment explanation
Indices: 93061120--93061150 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
93061110 AAAGAGTCCA
*
93061120 ACCATC ACCACC ACCATC ACCATC ACCATC A
1 ACCATC ACCATC ACCATC ACCATC ACCATC A
93061151 TCTTCCTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.35, C:0.52, G:0.00, T:0.13
Consensus pattern (6 bp):
ACCATC
Found at i:93063474 original size:16 final size:16
Alignment explanation
Indices: 93063453--93063483 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
93063443 AAAATATTTT
*
93063453 TTATAAAGTTTATATA
1 TTATAAAATTTATATA
93063469 TTATAAAATTTATAT
1 TTATAAAATTTATAT
93063484 TAATTTCAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (16 bp):
TTATAAAATTTATATA
Found at i:93069360 original size:87 final size:87
Alignment explanation
Indices: 93069214--93069373 Score: 259
Period size: 87 Copynumber: 1.8 Consensus size: 87
93069204 AATAGCATGT
* *
93069214 TTATAAATCATTTGGATAACTAATTTTGACACTTGATTTGTATATGCATTGCTTTCAAATCATGT
1 TTATAAATCATTTGGATAACTAATTATGACACTTGATTCGTATATGCATTGCTTTCAAATCATGT
93069279 TAGAACCATTGAGCTCTTTTGC
66 TAGAACCATTGAGCTCTTTTGC
* *
93069301 TTATAAATTATTTGGATAACTAAATTATG-TACTTGATTCGTATATGCATTGCTTTCAAATCATG
1 TTATAAATCATTTGGATAACT-AATTATGACACTTGATTCGTATATGCATTGCTTTCAAATCATG
*
93069365 TTAGCACCA
65 TTAGAACCA
93069374 CCAACTCTTT
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
87 61 0.91
88 6 0.09
ACGTcount: A:0.31, C:0.14, G:0.13, T:0.42
Consensus pattern (87 bp):
TTATAAATCATTTGGATAACTAATTATGACACTTGATTCGTATATGCATTGCTTTCAAATCATGT
TAGAACCATTGAGCTCTTTTGC
Found at i:93074034 original size:6 final size:6
Alignment explanation
Indices: 93074023--93074056 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
93074013 CTCCATTCAG
* *
93074023 AGAAGT AGAAGT AGAAGT AGAACT AGAACT AGAA
1 AGAAGT AGAAGT AGAAGT AGAAGT AGAAGT AGAA
93074057 CGGTCAAGGC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.53, C:0.06, G:0.26, T:0.15
Consensus pattern (6 bp):
AGAAGT
Found at i:93076008 original size:18 final size:18
Alignment explanation
Indices: 93075967--93076008 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
93075957 AAGGGTTAAG
93075967 TATTAATTTACAATAATTA
1 TATT-ATTTACAATAATTA
*
93075986 CATTATTTA-AATAAATTA
1 TATTATTTACAAT-AATTA
93076004 TATTA
1 TATTA
93076009 AAATTTCATC
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 3 0.15
18 14 0.70
19 3 0.15
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (18 bp):
TATTATTTACAATAATTA
Found at i:93087018 original size:33 final size:33
Alignment explanation
Indices: 93086976--93087042 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
93086966 TTGAATATGT
93086976 TTGTGAATCAATTCACTTGTGACGTTCATAGTG
1 TTGTGAATCAATTCACTTGTGACGTTCATAGTG
93087009 TTGTGAATCAATTCACTTGTGACGTTCATAGTG
1 TTGTGAATCAATTCACTTGTGACGTTCATAGTG
93087042 T
1 T
93087043 GATTTACCTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.24, C:0.15, G:0.21, T:0.40
Consensus pattern (33 bp):
TTGTGAATCAATTCACTTGTGACGTTCATAGTG
Found at i:93093910 original size:47 final size:47
Alignment explanation
Indices: 93093847--93093976 Score: 181
Period size: 47 Copynumber: 2.8 Consensus size: 47
93093837 GTGCAAATAA
* *** *
93093847 TACCTTGATTTGGCTACGGGCCATGATATAGGTA-TTTTGAGAGGAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCGGA-AGAAGT
*
93093894 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCGGAATAAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCGGAAGAAGT
*
93093941 TACCTTGATTTGGCTACGGGTCATGGTATAGGTACT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACT
93093977 TATCGATTGT
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
47 72 0.96
48 3 0.04
ACGTcount: A:0.22, C:0.16, G:0.28, T:0.33
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCGGAAGAAGT
Found at i:93095862 original size:46 final size:44
Alignment explanation
Indices: 93095808--93095917 Score: 139
Period size: 44 Copynumber: 2.5 Consensus size: 44
93095798 GACAGAACGA
* *
93095808 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGATAGG
1 AATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAGACAGG
* *
93095854 ATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAGACAGG
* **
93095898 AATAATTCATGTAAGTCCAT
1 AATGAGCCATGTAAGTCCAT
93095918 GTCAAAAACA
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
44 34 0.61
46 22 0.39
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.30
Consensus pattern (44 bp):
AATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAGACAGG
Found at i:93095909 original size:44 final size:45
Alignment explanation
Indices: 93095812--93095936 Score: 135
Period size: 44 Copynumber: 2.8 Consensus size: 45
93095802 GAACGAAATG
* * * *
93095812 AGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGATAGGATTG
1 AGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGGAATA
*
93095858 AGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGGAATA
1 AGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGGAATA
** * * *
93095902 ATTCATGTAAGTCCATGTCAAAAACATGGCATTGG
1 AGCCATGTAAGTCCATAT-TAAAATATGGCATTGG
93095937 CAGGATATTG
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
44 35 0.53
46 31 0.47
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (45 bp):
AGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGGAATA
Found at i:93099033 original size:24 final size:24
Alignment explanation
Indices: 93098982--93099037 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
93098972 TCTTAATTAA
* *
93098982 AAGTCCCTTGGTTAAATAATCATT
1 AAGTCCCTTGGTTAAATAATAATC
* **
93099006 AAGTCCCTTGGTTAATTGCTAATC
1 AAGTCCCTTGGTTAAATAATAATC
93099030 AAGTCCCT
1 AAGTCCCT
93099038 GTATATTTTC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (24 bp):
AAGTCCCTTGGTTAAATAATAATC
Found at i:93109435 original size:2 final size:2
Alignment explanation
Indices: 93109428--93109458 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
93109418 TTTAACGCAA
93109428 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
93109459 AAATAAGATC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:93109552 original size:2 final size:2
Alignment explanation
Indices: 93109547--93109575 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
93109537 TCACACACAC
93109547 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 A
93109576 ACAGGATGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:93117174 original size:18 final size:17
Alignment explanation
Indices: 93117147--93117180 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
93117137 TTGTACCCAC
*
93117147 AAATTTTGAGTCGAAAGA
1 AAATTCTGAGTC-AAAGA
93117165 AAATTCTGAGTCAAAG
1 AAATTCTGAGTCAAAG
93117181 TTATTGATGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.44, C:0.09, G:0.21, T:0.26
Consensus pattern (17 bp):
AAATTCTGAGTCAAAGA
Found at i:93124058 original size:25 final size:25
Alignment explanation
Indices: 93124006--93124056 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
93123996 CCTAAATAAC
93124006 TTAGTTTGTTTTTCCTTTTTTTTGT
1 TTAGTTTGTTTTTCCTTTTTTTTGT
93124031 TTAGTTTGTTTTTCC-TTTTTTTGT
1 TTAGTTTGTTTTTCCTTTTTTTTGT
93124055 TT
1 TT
93124057 TATAATCTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 11 0.42
25 15 0.58
ACGTcount: A:0.04, C:0.08, G:0.12, T:0.76
Consensus pattern (25 bp):
TTAGTTTGTTTTTCCTTTTTTTTGT
Found at i:93130563 original size:46 final size:46
Alignment explanation
Indices: 93130496--93130588 Score: 150
Period size: 46 Copynumber: 2.0 Consensus size: 46
93130486 GGAAATAGGG
* *
93130496 CATACATACTGACTTGGGTTACACGGCCAACCATACACCAGTGTGT
1 CATACATACTGACTTGGGTTACACAGCCAACCACACACCAGTGTGT
* *
93130542 CATACATACTGACTTGGGTTACACAGCCAACCACACGCCCGTGTGT
1 CATACATACTGACTTGGGTTACACAGCCAACCACACACCAGTGTGT
93130588 C
1 C
93130589 TAACCCGTGT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (46 bp):
CATACATACTGACTTGGGTTACACAGCCAACCACACACCAGTGTGT
Found at i:93139132 original size:30 final size:30
Alignment explanation
Indices: 93139092--93139149 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
93139082 CTGGGCATTT
* *
93139092 CCACATGGGCTGGCCATACGCCCATGTGAG
1 CCACACGGGCTGGCCACACGCCCATGTGAG
*
93139122 CCACACGGGCTGGCCACACGCCTATGTG
1 CCACACGGGCTGGCCACACGCCCATGTG
93139150 CTAGTCCGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.19, C:0.36, G:0.29, T:0.16
Consensus pattern (30 bp):
CCACACGGGCTGGCCACACGCCCATGTGAG
Found at i:93139406 original size:17 final size:18
Alignment explanation
Indices: 93139386--93139422 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
93139376 TTTCTTTATG
93139386 TTTTGT-TGTTTTCCTAT
1 TTTTGTATGTTTTCCTAT
93139403 TTTTGTGATGTTTTCCTAT
1 TTTTGT-ATGTTTTCCTAT
93139422 T
1 T
93139423 ACATTATGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.33
19 12 0.67
ACGTcount: A:0.08, C:0.11, G:0.14, T:0.68
Consensus pattern (18 bp):
TTTTGTATGTTTTCCTAT
Found at i:93142420 original size:44 final size:44
Alignment explanation
Indices: 93142328--93142436 Score: 130
Period size: 44 Copynumber: 2.5 Consensus size: 44
93142318 TCAATTTCGA
* *
93142328 TTTTTCAACATCGACGTGGTACAATAGAGAATTAATCCTTATTT
1 TTTTTCAACATCGACATGGTACAATAGAGAATCAATCCTTATTT
* * * *
93142372 TTTTTCAACATCAACATGGTACAATGGAG-ATCAATTCTTGTTTT
1 TTTTTCAACATCGACATGGTACAATAGAGAATCAATCCTT-ATTT
* *
93142416 TTTTTTAACATTGACATGGTA
1 TTTTTCAACATCGACATGGTA
93142437 AGGTAGAGAC
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
43 8 0.15
44 47 0.85
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.41
Consensus pattern (44 bp):
TTTTTCAACATCGACATGGTACAATAGAGAATCAATCCTTATTT
Found at i:93142727 original size:70 final size:70
Alignment explanation
Indices: 93142537--93142735 Score: 224
Period size: 70 Copynumber: 2.8 Consensus size: 70
93142527 AAAATGGCGA
* * *
93142537 GAAGAGCTTTTGCAACTTCAACATGGCTAGAGGAGGGCCCATTCCGAACTTTGCAACATCAACAT
1 GAAGAACTTTTGCAACTTCAACATGACTAGAGGAGGGCCCATTCTGAACTTTGCAACATCAACAT
93142602 GGAAG
66 GGAAG
* ** * *
93142607 AAAGAACTTTTGCAACTTCAACATGA-TGAGAGGAGAACCCA-TCTCGAACTTTGTAACTTCAAC
1 GAAGAACTTTTGCAACTTCAACATGACT-AGAGGAGGGCCCATTCT-GAACTTTGCAACATCAAC
93142670 AT-GAAGG
64 ATGGAA-G
** * * * *
93142677 GAAGAACTTTTGCAACTTCAATGTGACTAGAGGAGGGTCGATTCTAAACTTCGCAACAT
1 GAAGAACTTTTGCAACTTCAACATGACTAGAGGAGGGCCCATTCTGAACTTTGCAACAT
93142736 TAAAACAGTT
Statistics
Matches: 105, Mismatches: 19, Indels: 10
0.78 0.14 0.07
Matches are distributed among these distances:
69 6 0.06
70 95 0.90
71 4 0.04
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.24
Consensus pattern (70 bp):
GAAGAACTTTTGCAACTTCAACATGACTAGAGGAGGGCCCATTCTGAACTTTGCAACATCAACAT
GGAAG
Found at i:93149808 original size:2 final size:2
Alignment explanation
Indices: 93149803--93149844 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
93149793 CTTTTTTACC
93149803 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
93149845 GAACATATTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:93150493 original size:3 final size:3
Alignment explanation
Indices: 93150434--93150474 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
93150424 TTACTTTATG
93150434 TTA TTA TTA TTA -TA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
93150475 CTAGTATATG
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:93155696 original size:46 final size:44
Alignment explanation
Indices: 93155637--93155751 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
93155627 ACAGGACAGA
* *
93155637 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
93155683 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
93155727 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
93155752 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:93155732 original size:44 final size:45
Alignment explanation
Indices: 93155637--93155770 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
93155627 ACAGGACAGA
* *
93155637 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
93155683 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
93155727 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
93155771 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:93161837 original size:46 final size:44
Alignment explanation
Indices: 93161778--93161892 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
93161768 ACAGGACAGA
* *
93161778 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
93161824 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
93161868 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
93161893 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:93161873 original size:44 final size:45
Alignment explanation
Indices: 93161778--93161911 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
93161768 ACAGGACAGA
* *
93161778 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
93161824 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
93161868 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
93161912 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:93167040 original size:25 final size:25
Alignment explanation
Indices: 93166992--93167040 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
93166982 CATATCACAG
*
93166992 CTCTTTATGAGCATTCTGACATAGA
1 CTCTTTATGAGCATTCTGAAATAGA
*
93167017 CTCTTTGTGAGC-TTCTTGAAATAG
1 CTCTTTATGAGCATTC-TGAAATAG
93167041 CTCGCTTGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 3 0.14
25 18 0.86
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.39
Consensus pattern (25 bp):
CTCTTTATGAGCATTCTGAAATAGA
Found at i:93167404 original size:17 final size:17
Alignment explanation
Indices: 93167377--93167418 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 17
93167367 TTATATGGAA
93167377 ATATG-ATATGAAAAGT
1 ATATGTATATGAAAAGT
93167393 ATATGTATATG-AAAGT
1 ATATGTATATGAAAAGT
93167409 -TAT-TATATGA
1 ATATGTATATGA
93167419 TGAGCTCATC
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 6 0.25
15 3 0.12
16 10 0.42
17 5 0.21
ACGTcount: A:0.45, C:0.00, G:0.17, T:0.38
Consensus pattern (17 bp):
ATATGTATATGAAAAGT
Found at i:93168776 original size:37 final size:38
Alignment explanation
Indices: 93168725--93168796 Score: 94
Period size: 37 Copynumber: 1.9 Consensus size: 38
93168715 ACAACTTTAA
*
93168725 CACCCAATGTCTCATC-AATTAAA-TCGAAGCAAATTGG
1 CACCCAATGCCTCATCGAATTAAAGTCGAAG-AAATTGG
* *
93168762 CACCCAGTGCCTCATCGACTTAAAGTCGAAGAAAT
1 CACCCAATGCCTCATCGAATTAAAGTCGAAGAAAT
93168797 CCCTGAACTC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
37 14 0.47
38 10 0.33
39 6 0.20
ACGTcount: A:0.36, C:0.26, G:0.15, T:0.22
Consensus pattern (38 bp):
CACCCAATGCCTCATCGAATTAAAGTCGAAGAAATTGG
Found at i:93169692 original size:10 final size:9
Alignment explanation
Indices: 93169669--93169702 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
93169659 TTCGTTATCC
*
93169669 TTCTTTTCT
1 TTCTTTTTT
93169678 TTCTTTATTT
1 TTCTTT-TTT
93169688 TTCTTTTTT
1 TTCTTTTTT
93169697 TTCTTT
1 TTCTTT
93169703 CTTCTTTTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 15 0.65
10 8 0.35
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (9 bp):
TTCTTTTTT
Found at i:93169703 original size:13 final size:13
Alignment explanation
Indices: 93169673--93169715 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
93169663 TTATCCTTCT
93169673 TTTCTTTCTTTATT-
1 TTTCTTT-TTT-TTC
93169687 TTTCTTTTTTTTC
1 TTTCTTTTTTTTC
*
93169700 TTTCTTCTTTTTC
1 TTTCTTTTTTTTC
93169713 TTT
1 TTT
93169716 TAATTTGCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 2 0.07
13 18 0.67
14 7 0.26
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTCTTTTTTTTC
Found at i:93169710 original size:22 final size:23
Alignment explanation
Indices: 93169672--93169716 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
93169662 GTTATCCTTC
93169672 TTTTCTTTCTTTATTTTTCTTTT
1 TTTTCTTTCTTTATTTTTCTTTT
*
93169695 TTTTCTTTC-TTCTTTTTCTTTT
1 TTTTCTTTCTTTATTTTTCTTTT
93169717 AATTTGCATG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 12 0.57
23 9 0.43
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (23 bp):
TTTTCTTTCTTTATTTTTCTTTT
Found at i:93179984 original size:9 final size:9
Alignment explanation
Indices: 93179970--93180073 Score: 120
Period size: 9 Copynumber: 11.6 Consensus size: 9
93179960 ATAAGTATAA
93179970 AATTAACCG
1 AATTAACCG
*
93179979 AATTAACCT
1 AATTAACCG
*
93179988 AATTAATCG
1 AATTAACCG
**
93179997 AATTAAAAG
1 AATTAACCG
93180006 AATT-ACCTG
1 AATTAACC-G
*
93180015 AATTACCCG
1 AATTAACCG
* *
93180024 AATTACCCA
1 AATTAACCG
93180033 AATTAACCG
1 AATTAACCG
93180042 AATTAACCG
1 AATTAACCG
93180051 AATTAACCG
1 AATTAACCG
*
93180060 AATTAACCA
1 AATTAACCG
93180069 AATTA
1 AATTA
93180074 TTTGTATAAA
Statistics
Matches: 81, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
8 1 0.01
9 78 0.96
10 2 0.02
ACGTcount: A:0.46, C:0.20, G:0.08, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:93180104 original size:6 final size:6
Alignment explanation
Indices: 93180093--93180180 Score: 124
Period size: 6 Copynumber: 14.2 Consensus size: 6
93180083 AATTATAAGT
*
93180093 TTTTTA TTTTTA TTTTTA GTTTTAAA TTTTTA TTTTTA TTTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA -TTTT-TA TTTTTA TTTTTA TTTTTA TTTTTA
93180143 TTTTTA TTTTTA TTTATTA TTTTT- TTTTTAA TTTTTA T
1 TTTTTA TTTTTA TTT-TTA TTTTTA TTTTT-A TTTTTA T
93180181 GATTGGGTTG
Statistics
Matches: 75, Mismatches: 2, Indels: 10
0.86 0.02 0.11
Matches are distributed among these distances:
5 5 0.07
6 50 0.67
7 19 0.25
8 1 0.01
ACGTcount: A:0.19, C:0.00, G:0.01, T:0.80
Consensus pattern (6 bp):
TTTTTA
Found at i:93180881 original size:17 final size:17
Alignment explanation
Indices: 93180859--93180893 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
93180849 AGTACCGAGT
93180859 CAGTTTGGATTGCGCAA
1 CAGTTTGGATTGCGCAA
93180876 CAGTTTGGATTGCGCAA
1 CAGTTTGGATTGCGCAA
93180893 C
1 C
93180894 TAAGAGGGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.29
Consensus pattern (17 bp):
CAGTTTGGATTGCGCAA
Found at i:93188759 original size:14 final size:14
Alignment explanation
Indices: 93188740--93188769 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
93188730 TTTCGCTTTA
93188740 TTACTTTATTTGCG
1 TTACTTTATTTGCG
93188754 TTACTTTATTTGCG
1 TTACTTTATTTGCG
93188768 TT
1 TT
93188770 TGATGTCTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.13, C:0.13, G:0.13, T:0.60
Consensus pattern (14 bp):
TTACTTTATTTGCG
Found at i:93190463 original size:22 final size:22
Alignment explanation
Indices: 93190438--93190480 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
93190428 TCTGCAAGCT
93190438 TTAACAAAATTTAATGTACATA
1 TTAACAAAATTTAATGTACATA
93190460 TTAACAAAATTTAATGTACAT
1 TTAACAAAATTTAATGTACAT
93190481 GTATAAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.09, G:0.05, T:0.37
Consensus pattern (22 bp):
TTAACAAAATTTAATGTACATA
Found at i:93197008 original size:25 final size:25
Alignment explanation
Indices: 93196974--93197024 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
93196964 TTTGAAACAA
93196974 ACAAAACCTTAGTGCATTTAAGGCT
1 ACAAAACCTTAGTGCATTTAAGGCT
93196999 ACAAAACCTTAGTGCATTTAAGGCT
1 ACAAAACCTTAGTGCATTTAAGGCT
93197024 A
1 A
93197025 TGTTAAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (25 bp):
ACAAAACCTTAGTGCATTTAAGGCT
Found at i:93210354 original size:60 final size:60
Alignment explanation
Indices: 93210264--93210478 Score: 304
Period size: 60 Copynumber: 3.6 Consensus size: 60
93210254 AAAATCCAAG
* * *
93210264 ATAGTTGGGTGACAAAAAAACAAAATTGACTAATAGTTCAGTGACCATTTTGTAACTATTC
1 ATAGTTGGGTGACCAAAAAA-GAAATTGACTAATAGTTGAGTGACCATTTTGTAACTATTC
* * * *
93210325 ATAGCTGGGTGACCAAAAAAGAAATTGACTAATAGTTGGGTGACTATTTTGTAAATATTC
1 ATAGTTGGGTGACCAAAAAAGAAATTGACTAATAGTTGAGTGACCATTTTGTAACTATTC
* * *
93210385 ATAATTGGGTGATCAAAAAAGAAATTGACTAATAGTTGAGTGATCATTTTGTAACTATTC
1 ATAGTTGGGTGACCAAAAAAGAAATTGACTAATAGTTGAGTGACCATTTTGTAACTATTC
* * *
93210445 ATAGTTGAGTGATCAAAAAAGAAATTTACTAATA
1 ATAGTTGGGTGACCAAAAAAGAAATTGACTAATA
93210479 TTTAAGCGAC
Statistics
Matches: 137, Mismatches: 17, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
60 119 0.87
61 18 0.13
ACGTcount: A:0.40, C:0.10, G:0.18, T:0.32
Consensus pattern (60 bp):
ATAGTTGGGTGACCAAAAAAGAAATTGACTAATAGTTGAGTGACCATTTTGTAACTATTC
Found at i:93216608 original size:22 final size:21
Alignment explanation
Indices: 93216581--93216625 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
93216571 TGGATATTTA
93216581 TATTTTGT-TTTAAATTTAAATT
1 TATTTT-TATTTAAA-TTAAATT
*
93216603 TATTTTTATTTATATTAAATT
1 TATTTTTATTTAAATTAAATT
93216624 TA
1 TA
93216626 AATATTATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (21 bp):
TATTTTTATTTAAATTAAATT
Found at i:93220800 original size:19 final size:19
Alignment explanation
Indices: 93220776--93220813 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
93220766 TAATTTAGTG
93220776 TTTAATAAAATTAATTAAC
1 TTTAATAAAATTAATTAAC
93220795 TTTAATAAAATTAATTAAC
1 TTTAATAAAATTAATTAAC
93220814 ATGTTGAGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (19 bp):
TTTAATAAAATTAATTAAC
Found at i:93228268 original size:33 final size:33
Alignment explanation
Indices: 93228226--93228298 Score: 121
Period size: 33 Copynumber: 2.2 Consensus size: 33
93228216 CAATCCCTCT
*
93228226 AACACACCAATGCTCATAAGAGTTAAT-CAGACC
1 AACACACCAATGCTCATAAGAGCTAATCCA-ACC
93228259 AACACACCAATGCTCATAAGAGCTAATCCAACC
1 AACACACCAATGCTCATAAGAGCTAATCCAACC
93228292 AACACAC
1 AACACAC
93228299 TAAACAGAGT
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
33 36 0.95
34 2 0.05
ACGTcount: A:0.44, C:0.32, G:0.10, T:0.15
Consensus pattern (33 bp):
AACACACCAATGCTCATAAGAGCTAATCCAACC
Found at i:93235667 original size:2 final size:2
Alignment explanation
Indices: 93235660--93235684 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
93235650 AATTTACTCT
93235660 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
93235685 TACAATATTA
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:93237606 original size:30 final size:26
Alignment explanation
Indices: 93237549--93237601 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
93237539 AGAACAAGAA
*
93237549 TTAAAGGATGATTGAAAAAAATTCTT
1 TTAAAGGATGATCGAAAAAAATTCTT
*
93237575 TTAAAGGATGATCGAAAAAAACTCTT
1 TTAAAGGATGATCGAAAAAAATTCTT
93237601 T
1 T
93237602 CTTTTGGGAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.45, C:0.08, G:0.15, T:0.32
Consensus pattern (26 bp):
TTAAAGGATGATCGAAAAAAATTCTT
Found at i:93241238 original size:44 final size:45
Alignment explanation
Indices: 93241148--93241276 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
93241138 ACAGAACAAA
*
93241148 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
93241194 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
93241238 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
93241277 CAGGATATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:93242725 original size:13 final size:13
Alignment explanation
Indices: 93242709--93242746 Score: 60
Period size: 12 Copynumber: 2.9 Consensus size: 13
93242699 TAACCCAACC
93242709 CAAAAAAAAAAAT
1 CAAAAAAAAAAAT
93242722 C-AAAAAAAAAAT
1 CAAAAAAAAAAAT
93242734 CAAAAAAAGAAAA
1 CAAAAAAA-AAAA
93242747 AACCTAATCT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 12 0.52
13 7 0.30
14 4 0.17
ACGTcount: A:0.84, C:0.08, G:0.03, T:0.05
Consensus pattern (13 bp):
CAAAAAAAAAAAT
Found at i:93242728 original size:12 final size:12
Alignment explanation
Indices: 93242711--93242741 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
93242701 ACCCAACCCA
93242711 AAAAAAAAAATC
1 AAAAAAAAAATC
93242723 AAAAAAAAAATC
1 AAAAAAAAAATC
93242735 AAAAAAA
1 AAAAAAA
93242742 GAAAAAACCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.87, C:0.06, G:0.00, T:0.06
Consensus pattern (12 bp):
AAAAAAAAAATC
Found at i:93243028 original size:27 final size:26
Alignment explanation
Indices: 93242988--93243045 Score: 80
Period size: 27 Copynumber: 2.2 Consensus size: 26
93242978 AGAAGAAAAA
*
93242988 TTTTTTTGAGATTCAAGAAGAGATTTT
1 TTTTTTTGAAATTCAAG-AGAGATTTT
* *
93243015 TTTTTTTGAAATTCAAGAGGGGTTTT
1 TTTTTTTGAAATTCAAGAGAGATTTT
93243041 TTTTT
1 TTTTT
93243046 CTTGGGAACA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 12 0.43
27 16 0.57
ACGTcount: A:0.24, C:0.03, G:0.19, T:0.53
Consensus pattern (26 bp):
TTTTTTTGAAATTCAAGAGAGATTTT
Found at i:93243161 original size:9 final size:10
Alignment explanation
Indices: 93243142--93243171 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
93243132 TAATTTTTGA
93243142 TTTCTTTTTT
1 TTTCTTTTTT
93243152 TTTCTTTTTT
1 TTTCTTTTTT
93243162 TTTCATTTTT
1 TTTC-TTTTT
93243172 GATTTTGCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 14 0.74
11 5 0.26
ACGTcount: A:0.03, C:0.10, G:0.00, T:0.87
Consensus pattern (10 bp):
TTTCTTTTTT
Found at i:93243748 original size:3 final size:3
Alignment explanation
Indices: 93243546--93243733 Score: 82
Period size: 3 Copynumber: 61.7 Consensus size: 3
93243536 TTTTCTTGCA
* * *
93243546 TAT TATT TAC TAT TAT TAT TAT TACCT TCAT T-T CAT TAT TAT TAT TAC
1 TAT TA-T TAT TAT TAT TAT TAT TA--T T-AT TAT TAT TAT TAT TAT TAT
** * * * *
93243594 TAT TGC TAT T-T TTT TGT TGT T-T ATAT TTT TATT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TA-T TAT TAT TAT TAT
* * *
93243639 TAT TAT TAT TAT TAT TAT TAT TAT CTCCGT GAC TAT TAT TAT TAT T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT -T--AT TAT TAT TAT TAT TAT TAT
* * * * * * *
93243686 TGT TA- TAT TAT TGT TA- TAT TAT CAC TAT TTT TCT TAC TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
93243732 TA
1 TA
93243734 CTACAACTAT
Statistics
Matches: 139, Mismatches: 31, Indels: 30
0.69 0.16 0.15
Matches are distributed among these distances:
2 10 0.07
3 115 0.83
4 10 0.07
5 2 0.01
6 2 0.01
ACGTcount: A:0.26, C:0.08, G:0.04, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:93243919 original size:21 final size:21
Alignment explanation
Indices: 93243870--93243954 Score: 79
Period size: 21 Copynumber: 4.2 Consensus size: 21
93243860 TTCTTTTCTC
**
93243870 TATT-TTATTACTATTATTAA
1 TATTATTATTACTATTATTTT
*
93243890 TATCATTATTACTATTATTTT
1 TATTATTATTACTATTATTTT
*
93243911 TATTTTTATT--T-TTATTTT
1 TATTATTATTACTATTATTTT
* * *
93243929 TATTACTACTACTGTTATTTT
1 TATTATTATTACTATTATTTT
93243950 TATTA
1 TATTA
93243955 ACATATTTTT
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
18 14 0.26
19 1 0.02
20 4 0.08
21 34 0.64
ACGTcount: A:0.27, C:0.07, G:0.01, T:0.65
Consensus pattern (21 bp):
TATTATTATTACTATTATTTT
Found at i:93243952 original size:6 final size:6
Alignment explanation
Indices: 93243904--93243932 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
93243894 ATTATTACTA
93243904 TTATTT TTATTT TTATTT TTATTT TTATT
1 TTATTT TTATTT TTATTT TTATTT TTATT
93243933 ACTACTACTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTATTT
Found at i:93244073 original size:20 final size:20
Alignment explanation
Indices: 93244021--93244073 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
93244011 CAACATATAC
*
93244021 TATTAT-TATTAATGTACTAT
1 TATTATATATTTAT-TACTAT
* *
93244041 TATTTTCTATTTATTACTAT
1 TATTATATATTTATTACTAT
*
93244061 TATTATATTTTTA
1 TATTATATATTTA
93244074 CCCATTACTC
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 21 0.78
21 6 0.22
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.62
Consensus pattern (20 bp):
TATTATATATTTATTACTAT
Found at i:93252613 original size:205 final size:205
Alignment explanation
Indices: 93252254--93254870 Score: 4702
Period size: 205 Copynumber: 12.9 Consensus size: 205
93252244 GTAATAGGCC
* *
93252254 ACACATAGCAGATCTCGCCTTCAGATGTTTATGCTGAAGCGGATCCAAGATGGTTTGGTATCCTT
1 ACACATAGCAGATCTCACCTTCAGATGTTTATGCTGAAGCGGATCCAAGATGGTTTGGCATCCTT
* * *
93252319 GTGTTTACAAGGAGCAAATCGAAGACATAGCTGATTTGTCTTTCACGTGATTACGATGAAGCAAA
66 GTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCAAA
* *
93252384 TCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAAAGAATCAAAGTTTGGCATCTTCACTTTGA
131 TCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGA
*
93252449 TGAAGAGCAG
196 TGGAGAGCAG
*
93252459 ACACATGGCAGATCTCACCTTCAGATGTTTATGCTGAAGCGGATCCAAGATGGTTTGGCATCCTT
1 ACACATAGCAGATCTCACCTTCAGATGTTTATGCTGAAGCGGATCCAAGATGGTTTGGCATCCTT
93252524 GTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCAAA
66 GTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCAAA
*
93252589 TCTAAGATGATTTCTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGA
131 TCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGA
93252654 TGGAGAGCAG
196 TGGAGAGCAG
*
93252664 ACACATAGCAGATCTCACCTTCAGATGTTTATGCTGAAGCGGATCCAAGATGGTTTAGCATCCTT
1 ACACATAGCAGATCTCACCTTCAGATGTTTATGCTGAAGCGGATCCAAGATGGTTTGGCATCCTT
93252729 GTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCAAA
66 GTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCAAA
93252794 TCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGA
131 TCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGA
93252859 TGGAGAGCAG
196 TGGAGAGCAG
93252869 ACACATAGCAGATCTCACCTTCAGATGATTT-TGCTGAAGCGGATCCAAGATGGTTTGGCATCCT
1 ACACATAGCAGATCTCACCTTCAGATG-TTTATGCTGAAGCGGATCCAAGATGGTTTGGCATCCT
*
93252933 TGTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTCGCTTTCATGTGATTACGATGAAGCAA
65 TGTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCAA
*
93252998 ATCTAAGATGATTTCTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTG
130 ATCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTG
93253063 ATGGAGAGCAG
195 ATGGAGAGCAG
93253074 ACACATAGCAGATCTCACCTTCAGATGTTTATGCTGAAGCGGATCCAAGATGGTTTGGCATCCTT
1 ACACATAGCAGATCTCACCTTCAGATGTTTATGCTGAAGCGGATCCAAGATGGTTTGGCATCCTT
93253139 GTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCAAA
66 GTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCAAA
93253204 TCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGA
131 TCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGA
93253269 TGGAGAGCAG
196 TGGAGAGCAG
93253279 ACACATAGCAGATCTCACCTTCAGATGATTT-TGCTGAAGCGGATCCAAGATGGTTTGGCATCCT
1 ACACATAGCAGATCTCACCTTCAGATG-TTTATGCTGAAGCGGATCCAAGATGGTTTGGCATCCT
93253343 TGTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCAA
65 TGTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCAA
* *
93253408 ATCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCTAAGCTTGGCATCTTCACTTTG
130 ATCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTG
93253473 ATGGAGAGCAG
195 ATGGAGAGCAG
93253484 ACACATAGCAGATCTCACCTTCAGATGTTTATGCTGAAGCGGATCCAAGATGGTTTGGCATCCTT
1 ACACATAGCAGATCTCACCTTCAGATGTTTATGCTGAAGCGGATCCAAGATGGTTTGGCATCCTT
93253549 GTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTAC------G---A
66 GTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCAAA
93253605 TCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGA
131 TCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGA
93253670 TGGAGAGCAG
196 TGGAGAGCAG
93253680 ACACATAGCAGATCTCACCTTCAGATGTTTATGCTGAAGCGGATCCAAGATGGTTTGGCATCCTT
1 ACACATAGCAGATCTCACCTTCAGATGTTTATGCTGAAGCGGATCCAAGATGGTTTGGCATCCTT
93253745 GTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCAAA
66 GTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCAAA
*
93253810 TCTAAGATGATTTCTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGA
131 TCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGA
93253875 TGGAGAGCAG
196 TGGAGAGCAG
93253885 ACACATAGCAGATCTCACCTTCAGATGATTT-TGCTGAAGCGGATCCAAGATGGTTTGGCATCCT
1 ACACATAGCAGATCTCACCTTCAGATG-TTTATGCTGAAGCGGATCCAAGATGGTTTGGCATCCT
93253949 TGTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCAA
65 TGTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCAA
*
93254014 ATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTG
130 ATCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTG
93254079 ATGGAGAGCAG
195 ATGGAGAGCAG
*
93254090 ACACATAGCAGATCTCACCTTCAGATGTTTATGCTGAAGCGGATCCAAAATGGTTTGGCATCCTT
1 ACACATAGCAGATCTCACCTTCAGATGTTTATGCTGAAGCGGATCCAAGATGGTTTGGCATCCTT
93254155 GTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTAC------G---A
66 GTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCAAA
93254211 TCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGA
131 TCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGA
93254276 TGGAGAGCAG
196 TGGAGAGCAG
93254286 ACACATAGCAGATCTCACCTTCAGATGTTTATGCTGAAGCGGATCCAAGATGGTTTGGCATCCTT
1 ACACATAGCAGATCTCACCTTCAGATGTTTATGCTGAAGCGGATCCAAGATGGTTTGGCATCCTT
93254351 GTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCAAA
66 GTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCAAA
*
93254416 TCTAAGATGATTTCTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGA
131 TCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGA
93254481 TGGAGAGCAG
196 TGGAGAGCAG
93254491 ACACATAGCAGATCTCACCTTCAGATGTTTATGCTGAAGCGGATCCAAGATGGTTTGGCATCCTT
1 ACACATAGCAGATCTCACCTTCAGATGTTTATGCTGAAGCGGATCCAAGATGGTTTGGCATCCTT
93254556 GTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCAAA
66 GTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCAAA
*
93254621 TCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCAAAGTTTGGCATCTTCACTTTGA
131 TCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGA
93254686 TGGAGAGCAG
196 TGGAGAGCAG
* * *
93254696 ACACATAGCAGATCTCACCTTCGGATGTTTATGCTGAAACGGATCCAAGATGGATTGGCATCCTT
1 ACACATAGCAGATCTCACCTTCAGATGTTTATGCTGAAGCGGATCCAAGATGGTTTGGCATCCTT
* ** * * ** * * *
93254761 ATACTTACAAGGAACAAATCGAA-TCATAGTTGATTTGGCTTTCGCGTGCTTACGTTAAAGCAAA
66 GTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCAAA
* * * * * *
93254825 TCTAAGATAATTTGGCATCTCTGTATTGTCAGAGATCAAATCGAAG
131 TCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAG
93254871 AAATAAATCT
Statistics
Matches: 2337, Mismatches: 51, Indels: 49
0.96 0.02 0.02
Matches are distributed among these distances:
196 386 0.17
199 2 0.00
202 2 0.00
204 82 0.04
205 1856 0.79
206 9 0.00
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (205 bp):
ACACATAGCAGATCTCACCTTCAGATGTTTATGCTGAAGCGGATCCAAGATGGTTTGGCATCCTT
GTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCAAA
TCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGA
TGGAGAGCAG
Found at i:93253920 original size:606 final size:608
Alignment explanation
Indices: 93252254--93254803 Score: 4657
Period size: 606 Copynumber: 4.2 Consensus size: 608
93252244 GTAATAGGCC
* *
93252254 ACACATAGCAGATCTCGCCTTCAGATGTTTATGCTGAAGCGGATCCAAGATGGTTTGGTATCCTT
1 ACACATAGCAGATCTCACCTTCAGATGTTTATGCTGAAGCGGATCCAAGATGGTTTGGCATCCTT
* * *
93252319 GTGTTTACAAGGAGCAAATCGAAGACATAGCTGATTTGTCTTTCACGTGATTACGATGAAGCAAA
66 GTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTAC-----AG--AA
* *
93252384 TCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAAAGAATCAAAGTTTGGCATCTTCACTTTGA
124 TCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGA
* *
93252449 TGAAGAGCAGACACATGGCAGATCTCACCTTCAGATGTTTATGCTGAAGCGGATCCAAGATGGTT
189 TGGAGAGCAGACACATAGCAGATCTCACCTTCAGATGTTTATGCTGAAGCGGATCCAAGATGGTT
93252514 TGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACG
254 TGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACG
93252579 ATGAAGCAAATCTAAGATGATTTCTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATC
319 ATGAAGCAAATCTAAGATGATTTCTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATC
93252644 TTCACTTTGATGGAGAGCAGACACATAGCAGATCTCACCTTCAGATGTTTATGCTGAAGCGGATC
384 TTCACTTTGATGGAGAGCAGACACATAGCAGATCTCACCTTCAGATGTTTATGCTGAAGCGGATC
*
93252709 CAAGATGGTTTAGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCA
449 CAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCA
93252774 TGTGATTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAA
514 TGTGATTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAA
93252839 GTTTGGCATCTTCACTTTGATGGAGAGCAG
579 GTTTGGCATCTTCACTTTGATGGAGAGCAG
93252869 ACACATAGCAGATCTCACCTTCAGATGATTT-TGCTGAAGCGGATCCAAGATGGTTTGGCATCCT
1 ACACATAGCAGATCTCACCTTCAGATG-TTTATGCTGAAGCGGATCCAAGATGGTTTGGCATCCT
*
93252933 TGTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTCGCTTTCATGTGATTACGATGAAGCAA
65 TGTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTAC-----AG--A
*
93252998 ATCTAAGATGATTTCTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTG
123 ATCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTG
93253063 ATGGAGAGCAGACACATAGCAGATCTCACCTTCAGATGTTTATGCTGAAGCGGATCCAAGATGGT
188 ATGGAGAGCAGACACATAGCAGATCTCACCTTCAGATGTTTATGCTGAAGCGGATCCAAGATGGT
93253128 TTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTAC
253 TTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTAC
*
93253193 GATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCAT
318 GATGAAGCAAATCTAAGATGATTTCTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCAT
93253258 CTTCACTTTGATGGAGAGCAGACACATAGCAGATCTCACCTTCAGATGATTT-TGCTGAAGCGGA
383 CTTCACTTTGATGGAGAGCAGACACATAGCAGATCTCACCTTCAGATG-TTTATGCTGAAGCGGA
93253322 TCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTT
447 TCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTT
*
93253387 CATGTGATTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCT
512 CATGTGATTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCG
*
93253452 AAGCTTGGCATCTTCACTTTGATGGAGAGCAG
577 AAGTTTGGCATCTTCACTTTGATGGAGAGCAG
93253484 ACACATAGCAGATCTCACCTTCAGATGTTTATGCTGAAGCGGATCCAAGATGGTTTGGCATCCTT
1 ACACATAGCAGATCTCACCTTCAGATGTTTATGCTGAAGCGGATCCAAGATGGTTTGGCATCCTT
93253549 GTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTAC-G-ATCTAAGA
66 GTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACAGAATCTAAGA
93253612 TGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGGAGAG
131 TGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGGAGAG
93253677 CAGACACATAGCAGATCTCACCTTCAGATGTTTATGCTGAAGCGGATCCAAGATGGTTTGGCATC
196 CAGACACATAGCAGATCTCACCTTCAGATGTTTATGCTGAAGCGGATCCAAGATGGTTTGGCATC
93253742 CTTGTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGC
261 CTTGTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGC
93253807 AAATCTAAGATGATTTCTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTT
326 AAATCTAAGATGATTTCTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTT
93253872 TGATGGAGAGCAGACACATAGCAGATCTCACCTTCAGATGATTT-TGCTGAAGCGGATCCAAGAT
391 TGATGGAGAGCAGACACATAGCAGATCTCACCTTCAGATG-TTTATGCTGAAGCGGATCCAAGAT
93253936 GGTTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGAT
455 GGTTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGAT
*
93254001 TACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGAACGAATCGAAGTTTGG
520 TACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGG
93254066 CATCTTCACTTTGATGGAGAGCAG
585 CATCTTCACTTTGATGGAGAGCAG
*
93254090 ACACATAGCAGATCTCACCTTCAGATGTTTATGCTGAAGCGGATCCAAAATGGTTTGGCATCCTT
1 ACACATAGCAGATCTCACCTTCAGATGTTTATGCTGAAGCGGATCCAAGATGGTTTGGCATCCTT
93254155 GTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTAC-G-ATCTAAGA
66 GTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACAGAATCTAAGA
93254218 TGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGGAGAG
131 TGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGGAGAG
93254283 CAGACACATAGCAGATCTCACCTTCAGATGTTTATGCTGAAGCGGATCCAAGATGGTTTGGCATC
196 CAGACACATAGCAGATCTCACCTTCAGATGTTTATGCTGAAGCGGATCCAAGATGGTTTGGCATC
93254348 CTTGTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGC
261 CTTGTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGC
93254413 AAATCTAAGATGATTTCTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTT
326 AAATCTAAGATGATTTCTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTT
93254478 TGATGGAGAGCAGACACATAGCAGATCTCACCTTCAGATGTTTATGCTGAAGCGGATCCAAGATG
391 TGATGGAGAGCAGACACATAGCAGATCTCACCTTCAGATGTTTATGCTGAAGCGGATCCAAGATG
93254543 GTTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATT
456 GTTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATT
*
93254608 ACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCAAAGTTTGGC
521 ACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGC
93254673 ATCTTCACTTTGATGGAGAGCAG
586 ATCTTCACTTTGATGGAGAGCAG
* * *
93254696 ACACATAGCAGATCTCACCTTCGGATGTTTATGCTGAAACGGATCCAAGATGGATTGGCATCCTT
1 ACACATAGCAGATCTCACCTTCAGATGTTTATGCTGAAGCGGATCCAAGATGGTTTGGCATCCTT
* ** * *
93254761 ATACTTACAAGGAACAAATCGAA-TCATAGTTGATTTGGCTTTC
66 GTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTC
93254804 GCGTGCTTAC
Statistics
Matches: 1898, Mismatches: 33, Indels: 18
0.97 0.02 0.01
Matches are distributed among these distances:
605 21 0.01
606 1161 0.61
609 1 0.00
614 3 0.00
615 706 0.37
616 6 0.00
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (608 bp):
ACACATAGCAGATCTCACCTTCAGATGTTTATGCTGAAGCGGATCCAAGATGGTTTGGCATCCTT
GTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACAGAATCTAAGA
TGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGGAGAG
CAGACACATAGCAGATCTCACCTTCAGATGTTTATGCTGAAGCGGATCCAAGATGGTTTGGCATC
CTTGTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGC
AAATCTAAGATGATTTCTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTT
TGATGGAGAGCAGACACATAGCAGATCTCACCTTCAGATGTTTATGCTGAAGCGGATCCAAGATG
GTTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATT
ACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGC
ATCTTCACTTTGATGGAGAGCAG
Found at i:93255002 original size:44 final size:43
Alignment explanation
Indices: 93254924--93255009 Score: 111
Period size: 44 Copynumber: 2.0 Consensus size: 43
93254914 GATTTCAGCA
* *
93254924 TGGCATCCCTGTGTTTATAAGGAGCAAGTTGAAGACAGCAGATT
1 TGGCATCCCTGTGTTTATAAGGAACAAGTCGAAGA-AGCAGATT
**
93254968 TGGCATCCCTGTGTTTATGGGGAAC-AGATCGAAGAAGCAGAT
1 TGGCATCCCTGTGTTTATAAGGAACAAG-TCGAAGAAGCAGAT
93255010 CAAGAACTCA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
43 9 0.24
44 28 0.76
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.26
Consensus pattern (43 bp):
TGGCATCCCTGTGTTTATAAGGAACAAGTCGAAGAAGCAGATT
Done.