Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007884.1 Hibiscus syriacus cultivar Beakdansim tig00110264_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: 2814991
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 13
Found at i:1083166 original size:22 final size:22
Alignment explanation
Indices: 1083138--1083243 Score: 180
Period size: 22 Copynumber: 4.9 Consensus size: 22
1083128 CGCTGAATGT
**
1083138 TGAACGGTTCAGTATTCAGCGC
1 TGAACGGTTCAACATTCAGCGC
1083160 TGAACGGTTCAACATTCAGCGC
1 TGAACGGTTCAACATTCAGCGC
1083182 TGAACGGTTCAACATTCAGCGC
1 TGAACGGTTCAACATTCAGCGC
1083204 TGAACGGTTCAACATTCAGCGC
1 TGAACGGTTCAACATTCAGCGC
1083226 TGAACGGTTC--CATTCAGC
1 TGAACGGTTCAACATTCAGC
1083244 AGTAAACAAA
Statistics
Matches: 82, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
20 8 0.10
22 74 0.90
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (22 bp):
TGAACGGTTCAACATTCAGCGC
Found at i:1084184 original size:25 final size:25
Alignment explanation
Indices: 1084132--1084186 Score: 65
Period size: 27 Copynumber: 2.1 Consensus size: 25
1084122 GATAATTAAG
* *
1084132 TTAATTAAATATATATTTTATTCATT
1 TTAAATAAATATATATTATATT-ATT
*
1084158 TTAAATAATATATATATTATATTTTT
1 TTAAATAA-ATATATATTATATTATT
1084184 TTA
1 TTA
1084187 TTTTTAATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 12 0.48
27 13 0.52
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (25 bp):
TTAAATAAATATATATTATATTATT
Found at i:1088836 original size:5 final size:5
Alignment explanation
Indices: 1088826--1088869 Score: 88
Period size: 5 Copynumber: 8.8 Consensus size: 5
1088816 GAACAAAGGA
1088826 AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAAT
1 AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAAT
1088870 AAGGGGTTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 39 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
AAATT
Found at i:1089385 original size:25 final size:25
Alignment explanation
Indices: 1089337--1089403 Score: 102
Period size: 25 Copynumber: 2.8 Consensus size: 25
1089327 TAAGGGCCAC
*
1089337 CATTTTTCAAAA--ACTTCATCAAA
1 CATTTTTCAAAATTATTTCATCAAA
1089360 CATTTTTCAAAATTATTTCATCAAA
1 CATTTTTCAAAATTATTTCATCAAA
*
1089385 CATTTTTCAACATTATTTC
1 CATTTTTCAAAATTATTTC
1089404 GTTATTTAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
23 12 0.30
25 28 0.70
ACGTcount: A:0.37, C:0.19, G:0.00, T:0.43
Consensus pattern (25 bp):
CATTTTTCAAAATTATTTCATCAAA
Found at i:1089699 original size:31 final size:32
Alignment explanation
Indices: 1089661--1089722 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 32
1089651 TCGAGTATTG
*
1089661 TGGAGCTCGACTCGACTCGAAAACT-CTGAAA
1 TGGAGCTCAACTCGACTCGAAAACTACTGAAA
*
1089692 TGGAGCTCAACTTGACTCGAAAACTACTGAA
1 TGGAGCTCAACTCGACTCGAAAACTACTGAA
1089723 CTTAAAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
31 23 0.82
32 5 0.18
ACGTcount: A:0.34, C:0.24, G:0.21, T:0.21
Consensus pattern (32 bp):
TGGAGCTCAACTCGACTCGAAAACTACTGAAA
Found at i:1091388 original size:9 final size:9
Alignment explanation
Indices: 1091354--1091402 Score: 55
Period size: 9 Copynumber: 5.4 Consensus size: 9
1091344 AATTAATTAA
1091354 ATATATATT
1 ATATATATT
*
1091363 TTA-ATCATT
1 ATATAT-ATT
* *
1091372 TTAAATATT
1 ATATATATT
1091381 ATATATATT
1 ATATATATT
1091390 ATATATATT
1 ATATATATT
1091399 ATAT
1 ATAT
1091403 TTTTATTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
8 2 0.06
9 31 0.89
10 2 0.06
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (9 bp):
ATATATATT
Found at i:1109590 original size:20 final size:20
Alignment explanation
Indices: 1109551--1109590 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
1109541 ACTCGATCCG
*
1109551 TTGACTGTTGATATTTACTT
1 TTGACTGTTGATATTGACTT
1109571 TTGACTGTTGACT-TTGACTT
1 TTGACTGTTGA-TATTGACTT
1109591 ATATTTGTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.17, C:0.12, G:0.17, T:0.53
Consensus pattern (20 bp):
TTGACTGTTGATATTGACTT
Found at i:1110287 original size:43 final size:44
Alignment explanation
Indices: 1110185--1110305 Score: 120
Period size: 43 Copynumber: 2.8 Consensus size: 44
1110175 CATTTATATC
* * * *
1110185 ATTCTGCATGGGATCCTCTACGGAGGATATCAT-CTCCTTCCTG
1 ATTCTGAATGGGATCCTCTACGGAGGGTATCATCCTCCGTCATG
* * * * *
1110228 ATTCTAAATAGCATCCTTTACGGAGGGCATCATCCT-CGTCATG
1 ATTCTGAATGGGATCCTCTACGGAGGGTATCATCCTCCGTCATG
* **
1110271 ATTCTGTATGGGATCCTCTGTGGAGGGTATCATCC
1 ATTCTGAATGGGATCCTCTACGGAGGGTATCATCC
1110306 CTATCCTAAT
Statistics
Matches: 60, Mismatches: 17, Indels: 2
0.76 0.22 0.03
Matches are distributed among these distances:
43 58 0.97
44 2 0.03
ACGTcount: A:0.21, C:0.25, G:0.22, T:0.32
Consensus pattern (44 bp):
ATTCTGAATGGGATCCTCTACGGAGGGTATCATCCTCCGTCATG
Found at i:1111437 original size:2 final size:2
Alignment explanation
Indices: 1111430--1111459 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1111420 TTTTCCTTTA
1111430 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
1111460 GAAATCTCTA
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):
AT
Found at i:1113212 original size:19 final size:19
Alignment explanation
Indices: 1113188--1113243 Score: 94
Period size: 19 Copynumber: 2.9 Consensus size: 19
1113178 CGATTTTGAT
1113188 AAATGTGTTGCGATAGTTA
1 AAATGTGTTGCGATAGTTA
*
1113207 AAATGTGTTGCAATAGTTA
1 AAATGTGTTGCGATAGTTA
*
1113226 AAATGTGTTGCGAGAGTT
1 AAATGTGTTGCGATAGTT
1113244 TGAAAAACGT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.32, C:0.05, G:0.27, T:0.36
Consensus pattern (19 bp):
AAATGTGTTGCGATAGTTA
Found at i:1113732 original size:40 final size:40
Alignment explanation
Indices: 1113677--1114261 Score: 728
Period size: 40 Copynumber: 14.9 Consensus size: 40
1113667 TCGTTGCGAT
* *
1113677 TTTGGAAAATCGCAACGCGAACTTAGACTATCGCAATGAA
1 TTTGGAAAATCGCAACGCGAACTTCGACTATCGCAACGAA
**
1113717 TTTGGAAAATCGCAACATGAACTTCGACTATCGCAACGAA
1 TTTGGAAAATCGCAACGCGAACTTCGACTATCGCAACGAA
* *
1113757 TTTGGAAAATCGCAACGTGAACTTGGACTATCGCAACGAA
1 TTTGGAAAATCGCAACGCGAACTTCGACTATCGCAACGAA
*
1113797 TTTGGAAAATCGCAACGCGAACTTCGAATATCGCAACGAA
1 TTTGGAAAATCGCAACGCGAACTTCGACTATCGCAACGAA
1113837 TTTGGAAAATCGCAACGCGAACTTCGACTATCGCAACGAA
1 TTTGGAAAATCGCAACGCGAACTTCGACTATCGCAACGAA
*
1113877 TTTGGAAAATCGCAACGCAAACTTCGACTATCGCAACGAA
1 TTTGGAAAATCGCAACGCGAACTTCGACTATCGCAACGAA
*
1113917 TTTGGAAAATCGCAACGCAAACTTCGACTATCGCAACGAA
1 TTTGGAAAATCGCAACGCGAACTTCGACTATCGCAACGAA
* *
1113957 TTTGGAAAATCGCAACGTGAACTTGGACTATCGCAACGAA
1 TTTGGAAAATCGCAACGCGAACTTCGACTATCGCAACGAA
1113997 TTTGGAAAATCGCAACGCGAACTTCGACTATCGCAACGAA
1 TTTGGAAAATCGCAACGCGAACTTCGACTATCGCAACGAA
* * *
1114037 TTTGGAAAATCGCAACGTGAACTTGGACTATCGCAATGAA
1 TTTGGAAAATCGCAACGCGAACTTCGACTATCGCAACGAA
*
1114077 TTTGGAAAATCGCAACGCGAACTTCGA--A-CG---TGAA
1 TTTGGAAAATCGCAACGCGAACTTCGACTATCGCAACGAA
* ** * * **
1114111 CTTGGACTATCGCAA--CGAATTTGGAAAATCGCAACGCGAA
1 TTTGGAAAATCGCAACGCGAACTTCGACTATCGCAA--CGAA
* * ** * * *
1114151 CTTCGACTATCGTAACGTGAACTTGGACTATCGCAACGAA
1 TTTGGAAAATCGCAACGCGAACTTCGACTATCGCAACGAA
* ** * * **
1114191 TTTGG---A-C-TAACGTAAATTTGGAAAATCGCAACGAA
1 TTTGGAAAATCGCAACGCGAACTTCGACTATCGCAACGAA
*
1114226 TTTGGAAAATCGCAACGCGAACTTGGACTATCGCAA
1 TTTGGAAAATCGCAACGCGAACTTCGACTATCGCAA
1114262 AATCGCGTTG
Statistics
Matches: 485, Mismatches: 45, Indels: 30
0.87 0.08 0.05
Matches are distributed among these distances:
32 8 0.02
34 17 0.04
35 31 0.06
36 1 0.00
37 3 0.01
38 2 0.00
39 1 0.00
40 407 0.84
42 15 0.03
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.22
Consensus pattern (40 bp):
TTTGGAAAATCGCAACGCGAACTTCGACTATCGCAACGAA
Found at i:1114131 original size:53 final size:57
Alignment explanation
Indices: 1114045--1114196 Score: 222
Period size: 53 Copynumber: 2.7 Consensus size: 57
1114035 AATTTGGAAA
* *
1114045 ATCGCAACGTGAACTTGGACTATCGCAATGAATTTGGAAAATCGCAACGCG-A-ACT
1 ATCGTAACGTGAACTTGGACTATCGCAACGAATTTGGAAAATCGCAACGCGAACACT
1114100 -TCG-AACGTGAACTTGGACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTTCGACT
1 ATCGTAACGTGAACTTGGACTATCGCAACGAATTTGGAAAATCGCAACGCGAA---C-ACT
1114159 ATCGTAACGTGAACTTGGACTATCGCAACGAATTTGGA
1 ATCGTAACGTGAACTTGGACTATCGCAACGAATTTGGA
1114197 CTAACGTAAA
Statistics
Matches: 88, Mismatches: 1, Indels: 10
0.89 0.01 0.10
Matches are distributed among these distances:
53 45 0.51
54 4 0.05
59 3 0.03
60 3 0.03
61 33 0.38
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.23
Consensus pattern (57 bp):
ATCGTAACGTGAACTTGGACTATCGCAACGAATTTGGAAAATCGCAACGCGAACACT
Found at i:1114141 original size:19 final size:19
Alignment explanation
Indices: 1114119--1114242 Score: 85
Period size: 19 Copynumber: 6.5 Consensus size: 19
1114109 AACTTGGACT
1114119 ATCGCAACGAATTTGGAAA
1 ATCGCAACGAATTTGGAAA
* * **
1114138 ATCGCAACGCGAACTTCGACT
1 ATCGCAA--CGAATTTGGAAA
* * **
1114159 ATCGTAACGTGAACTTGGACT
1 ATCGCAAC--GAATTTGGAAA
*
1114180 ATCGCAACGAATTTGGACTA
1 ATCGCAACGAATTTGGA-AA
*
1114200 A-CG-TA--AATTTGGAAA
1 ATCGCAACGAATTTGGAAA
1114215 ATCGCAACGAATTTGGAAA
1 ATCGCAACGAATTTGGAAA
1114234 ATCGCAACG
1 ATCGCAACG
1114243 CGAACTTGGA
Statistics
Matches: 83, Mismatches: 13, Indels: 18
0.73 0.11 0.16
Matches are distributed among these distances:
15 2 0.02
16 10 0.12
17 1 0.01
18 1 0.01
19 37 0.45
20 1 0.01
21 31 0.37
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (19 bp):
ATCGCAACGAATTTGGAAA
Found at i:1114162 original size:21 final size:21
Alignment explanation
Indices: 1114103--1114261 Score: 97
Period size: 21 Copynumber: 8.1 Consensus size: 21
1114093 GCGAACTTCG
*
1114103 AACGTGAACTTGGACTATCGC
1 AACGCGAACTTGGACTATCGC
* **
1114124 AA--CGAATTTGGAAAATCGC
1 AACGCGAACTTGGACTATCGC
* *
1114143 AACGCGAACTTCGACTATCGT
1 AACGCGAACTTGGACTATCGC
*
1114164 AACGTGAACTTGGACTATCGC
1 AACGCGAACTTGGACTATCGC
*
1114185 AA--CGAATTTGGAC--T---
1 AACGCGAACTTGGACTATCGC
** * **
1114199 AACGTAAATTTGGAAAATCGC
1 AACGCGAACTTGGACTATCGC
* **
1114220 AA--CGAATTTGGAAAATCGC
1 AACGCGAACTTGGACTATCGC
1114239 AACGCGAACTTGGACTATCGC
1 AACGCGAACTTGGACTATCGC
1114260 AA
1 AA
1114262 AATCGCGTTG
Statistics
Matches: 105, Mismatches: 22, Indels: 22
0.70 0.15 0.15
Matches are distributed among these distances:
14 2 0.02
16 8 0.08
17 1 0.01
18 1 0.01
19 41 0.39
21 52 0.50
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.23
Consensus pattern (21 bp):
AACGCGAACTTGGACTATCGC
Found at i:1114212 original size:35 final size:35
Alignment explanation
Indices: 1114163--1114231 Score: 102
Period size: 35 Copynumber: 2.0 Consensus size: 35
1114153 TCGACTATCG
* **
1114163 TAACGTGAACTTGGACTATCGCAACGAATTTGGAC
1 TAACGTAAACTTGGAAAATCGCAACGAATTTGGAC
*
1114198 TAACGTAAATTTGGAAAATCGCAACGAATTTGGA
1 TAACGTAAACTTGGAAAATCGCAACGAATTTGGA
1114232 AAATCGCAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (35 bp):
TAACGTAAACTTGGAAAATCGCAACGAATTTGGAC
Found at i:1117042 original size:18 final size:18
Alignment explanation
Indices: 1117004--1117066 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 18
1116994 AAATTAAATT
1117004 CTTAATATTTATATATCTTAA
1 CTTAA-ATTTATATA--TTAA
1117025 CTTAAATTTATATATTAA
1 CTTAAATTTATATATTAA
* * * *
1117043 ATTAACTTTACATCTTAA
1 CTTAAATTTATATATTAA
1117061 CATTAA
1 C-TTAA
1117067 CAAATATTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
18 18 0.50
19 4 0.11
20 9 0.25
21 5 0.14
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.48
Consensus pattern (18 bp):
CTTAAATTTATATATTAA
Found at i:1117108 original size:30 final size:29
Alignment explanation
Indices: 1117074--1117225 Score: 119
Period size: 31 Copynumber: 5.0 Consensus size: 29
1117064 TAACAAATAT
*
1117074 TTTTCTTAATTTATTAAATATATTTTATTC
1 TTTTCTTAATTTA-AAAATATATTTTATTC
** **
1117104 TTTTCGCAACCTAAAAATATATTTTATTC
1 TTTTCTTAATTTAAAAATATATTTTATTC
1117133 TTATT-TTAATTTAAAATATATATTTTAATT-
1 TT-TTCTTAATTTAAAA-ATATATTTT-ATTC
* * *
1117163 TTATCTTAAATTAAAAAAATATAATTTATTC
1 TTTTCTT-AATT-TAAAAATATATTTTATTC
* * *
1117194 TTTTATTAACTTAAATATTTATATTTTATTC
1 TTTTCTTAATTTAAA-A-ATATATTTTATTC
1117225 T
1 T
1117226 GATAATATTT
Statistics
Matches: 95, Mismatches: 18, Indels: 17
0.73 0.14 0.13
Matches are distributed among these distances:
29 28 0.29
30 31 0.33
31 32 0.34
32 4 0.04
ACGTcount: A:0.37, C:0.07, G:0.01, T:0.55
Consensus pattern (29 bp):
TTTTCTTAATTTAAAAATATATTTTATTC
Found at i:1117301 original size:30 final size:29
Alignment explanation
Indices: 1117230--1117599 Score: 270
Period size: 30 Copynumber: 12.6 Consensus size: 29
1117220 TATTCTGATA
* * * *
1117230 ATATTTTAAATTTAAGATAAAAATATAAT
1 ATATTTTTAAGTTAAGATAAGAATAAAAT
*
1117259 AT-TTTTTATAGTTAAGATAATAATAAAAT
1 ATATTTTTA-AGTTAAGATAAGAATAAAAT
*
1117288 ATATTTTT--G-T-AGTTAA-AATAAATAT
1 ATATTTTTAAGTTAAGATAAGAATAAA-AT
* * *
1117313 ATATATTTAAGTTGAGATAAGAATAAAAA
1 ATATTTTTAAGTTAAGATAAGAATAAAAT
* *
1117342 ATATGTTTTAAGTTAAAATAAGAAT-TAAT
1 ATAT-TTTTAAGTTAAGATAAGAATAAAAT
* * *
1117371 -TATATTTAATGCTTTAAGGTAAGAACAAAAT
1 ATATTTTTAA-G--TTAAGATAAGAATAAAAT
* * * * *
1117402 ATATTTAATGATTTAAGCTAAGAATATAAT
1 ATATTT-TTAAGTTAAGATAAGAATAAAAT
* ** * *
1117432 TTATGTAATAAGTTAGGATAATAATAAAAT
1 ATAT-TTTTAAGTTAAGATAAGAATAAAAT
*
1117462 ATATTTTTAAGTTAAGATAAAGACTAAAAT
1 ATATTTTTAAGTTAAGAT-AAGAATAAAAT
*
1117492 ATATTTTTAAGTTAAAATAAGAATAAAAT
1 ATATTTTTAAGTTAAGATAAGAATAAAAT
* * * *
1117521 ATATTTTTATGCTAAGACAATAATAAAAT
1 ATATTTTTAAGTTAAGATAAGAATAAAAT
* * * *
1117550 ATGTTTAATAAGTTAATATAAAAAATAAAAT
1 ATATTT-TTAAGTTAAGAT-AAGAATAAAAT
1117581 ATATTTTTAATGTTAAGAT
1 ATATTTTTAA-GTTAAGAT
1117600 GTAAAATTAA
Statistics
Matches: 265, Mismatches: 56, Indels: 38
0.74 0.16 0.11
Matches are distributed among these distances:
24 6 0.02
25 14 0.05
26 1 0.00
27 7 0.03
28 10 0.04
29 83 0.31
30 112 0.42
31 26 0.10
32 4 0.02
33 2 0.01
ACGTcount: A:0.50, C:0.02, G:0.09, T:0.39
Consensus pattern (29 bp):
ATATTTTTAAGTTAAGATAAGAATAAAAT
Found at i:1117325 original size:24 final size:24
Alignment explanation
Indices: 1117265--1117325 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 24
1117255 TAATATTTTT
* *
1117265 TATAGTTAAGATAATAATAAAATA
1 TATATTTAAGTTAATAATAAAATA
* *
1117289 TATTTTTGTAGTTAA-AATAAATATA
1 TATATTT-AAGTTAATAATAAA-ATA
1117314 TATATTTAAGTT
1 TATATTTAAGTT
1117326 GAGATAAGAA
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
24 15 0.52
25 14 0.48
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (24 bp):
TATATTTAAGTTAATAATAAAATA
Found at i:1117627 original size:18 final size:18
Alignment explanation
Indices: 1117586--1117635 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
1117576 AAAATATATT
1117586 TTTAATGTTAAGATGTAAA
1 TTTAAT-TTAAGATGTAAA
* * *
1117605 ATTAATTTAATATGTGAA
1 TTTAATTTAAGATGTAAA
*
1117623 TTTAAGTTAAGAT
1 TTTAATTTAAGAT
1117636 ATATAAAATA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
18 20 0.80
19 5 0.20
ACGTcount: A:0.42, C:0.00, G:0.14, T:0.44
Consensus pattern (18 bp):
TTTAATTTAAGATGTAAA
Found at i:1129062 original size:20 final size:20
Alignment explanation
Indices: 1129037--1129074 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
1129027 CACATGTTAA
1129037 AGAATGCATCGATGCACTGT
1 AGAATGCATCGATGCACTGT
1129057 AGAATGCATCGATGCACT
1 AGAATGCATCGATGCACT
1129075 TCAAGGGGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.24
Consensus pattern (20 bp):
AGAATGCATCGATGCACTGT
Found at i:1129168 original size:21 final size:22
Alignment explanation
Indices: 1129122--1129178 Score: 55
Period size: 21 Copynumber: 2.6 Consensus size: 22
1129112 AGAAATGATA
*
1129122 GATTAATGTATATCAATTGGAT
1 GATTAATATATATCAATTGGAT
* *
1129144 -ATTAATATGTATCAA-TGTAT
1 GATTAATATATATCAATTGGAT
*
1129164 GATTATATAGATATC
1 GATTA-ATATATATC
1129179 GAGCACGAAC
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
20 4 0.14
21 17 0.61
22 7 0.25
ACGTcount: A:0.39, C:0.05, G:0.14, T:0.42
Consensus pattern (22 bp):
GATTAATATATATCAATTGGAT
Found at i:1142537 original size:17 final size:17
Alignment explanation
Indices: 1142515--1142549 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
1142505 GCTGAATTAC
1142515 CACCAGGCAAGAAAGCG
1 CACCAGGCAAGAAAGCG
1142532 CACCAGGCAAGAAAGCG
1 CACCAGGCAAGAAAGCG
1142549 C
1 C
1142550 TCCATATCAA
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:0.40, C:0.31, G:0.29, T:0.00
Consensus pattern (17 bp):
CACCAGGCAAGAAAGCG
Found at i:1144651 original size:33 final size:33
Alignment explanation
Indices: 1144609--1144683 Score: 150
Period size: 33 Copynumber: 2.3 Consensus size: 33
1144599 AACTTGGAAC
1144609 GTTGCACTTGTTCAAAGTTTGTTTCCACAGCAA
1 GTTGCACTTGTTCAAAGTTTGTTTCCACAGCAA
1144642 GTTGCACTTGTTCAAAGTTTGTTTCCACAGCAA
1 GTTGCACTTGTTCAAAGTTTGTTTCCACAGCAA
1144675 GTTGCACTT
1 GTTGCACTT
1144684 TCTATTTTGT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.37
Consensus pattern (33 bp):
GTTGCACTTGTTCAAAGTTTGTTTCCACAGCAA
Found at i:1147810 original size:30 final size:30
Alignment explanation
Indices: 1147762--1147857 Score: 83
Period size: 30 Copynumber: 3.3 Consensus size: 30
1147752 ATAGTTTTTA
* * *
1147762 TATTTTATAGTAATATAATTATATAAAT-AT
1 TATTTTTTATTAAAATAATTAT-TAAATAAT
*
1147792 TATTTTTTATTAAAATAA-TATTTATATAAT
1 TATTTTTTATTAAAATAATTA-TTAAATAAT
* * *
1147822 TATTATTTATTTAAAT--TTATTAATTAAT
1 TATTTTTTATTAAAATAATTATTAAATAAT
1147850 TATTTTTT
1 TATTTTTT
1147858 GTACTAATTA
Statistics
Matches: 54, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
28 14 0.26
29 8 0.15
30 32 0.59
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (30 bp):
TATTTTTTATTAAAATAATTATTAAATAAT
Found at i:1148017 original size:17 final size:17
Alignment explanation
Indices: 1147995--1148083 Score: 76
Period size: 17 Copynumber: 5.2 Consensus size: 17
1147985 ATTATTATTT
1147995 TTAATTTAAATTTATAA
1 TTAATTTAAATTTATAA
*
1148012 TGAATTT-AATTTA-AA
1 TTAATTTAAATTTATAA
* * *
1148027 TTTATAATGAATTTAT-A
1 TTAAT-TTAAATTTATAA
1148044 TTAATTATAAATTTATAA
1 TTAATT-TAAATTTATAA
*
1148062 TTAATGTTAATATTTATTA
1 TTAAT-TTAA-ATTTATAA
1148081 TTA
1 TTA
1148084 TTTTTAATAT
Statistics
Matches: 57, Mismatches: 8, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
15 5 0.09
16 7 0.12
17 25 0.44
18 9 0.16
19 11 0.19
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
TTAATTTAAATTTATAA
Found at i:1148047 original size:22 final size:22
Alignment explanation
Indices: 1147994--1148041 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
1147984 TATTATTATT
1147994 TTTAATTTAAATTTATAATGAA
1 TTTAATTTAAATTTATAATGAA
1148016 TTTAATTTAAATTTATAATGAA
1 TTTAATTTAAATTTATAATGAA
1148038 TTTA
1 TTTA
1148042 TATTAATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (22 bp):
TTTAATTTAAATTTATAATGAA
Found at i:1149716 original size:21 final size:21
Alignment explanation
Indices: 1149692--1149761 Score: 79
Period size: 21 Copynumber: 3.3 Consensus size: 21
1149682 GCCATCTTCG
*
1149692 CAGGGTTATATTCCTAGCCCT
1 CAGGGTTATATTCCTAGCCCC
*
1149713 CAGGGTTACATTCCTAGCCCGC
1 CAGGGTTATATTCCTAGCCC-C
* * *
1149735 CA-GGTTATATGCCTAGCTCG
1 CAGGGTTATATTCCTAGCCCC
1149755 CAGGGTT
1 CAGGGTT
1149762 TTATAACACC
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
20 2 0.05
21 37 0.90
22 2 0.05
ACGTcount: A:0.19, C:0.29, G:0.24, T:0.29
Consensus pattern (21 bp):
CAGGGTTATATTCCTAGCCCC
Found at i:1150437 original size:14 final size:14
Alignment explanation
Indices: 1150418--1150445 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1150408 TATCCTTAAT
1150418 ATATACATTAAAAC
1 ATATACATTAAAAC
1150432 ATATACATTAAAAC
1 ATATACATTAAAAC
1150446 CAACTTATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (14 bp):
ATATACATTAAAAC
Found at i:1150593 original size:23 final size:23
Alignment explanation
Indices: 1150533--1150595 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
1150523 TCACTTCATA
* *
1150533 TTTATTCAATTTATCCATAACAT
1 TTTATCCAATTTATTCATAACAT
*
1150556 TTTATCCAATTTATTCATAATAT
1 TTTATCCAATTTATTCATAACAT
1150579 TTTATCCAATTTATTCA
1 TTTATCCAATTTATTCA
1150596 AACTTCACAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.33, C:0.16, G:0.00, T:0.51
Consensus pattern (23 bp):
TTTATCCAATTTATTCATAACAT
Found at i:1150896 original size:138 final size:138
Alignment explanation
Indices: 1150640--1151223 Score: 922
Period size: 138 Copynumber: 4.3 Consensus size: 138
1150630 ATCCAATTTC
* * *
1150640 ACATGAGTGACATAATAGGGCAATTATAACATATTCTCTGACAAAATAAT-GAAGGTGCGCCCGC
1 ACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCGCCCCC
* * * *
1150704 GGGAACGCGCTTTCACCACTTTGCCAAGTCCCCTTAGAAATAATTGATACTGACATGAATAGTTC
66 GGGAACGCGCCTTCACCACTTTGCCAAGTCCCCTCAGAAATAATAGGTACTGACATGAATAGTTC
* *
1150769 TCCTGGGG
131 TTCGGGGG
* * * *
1150777 ACATGAGTGACATAATAGAGCAATGATAACAAATTCTTTGACAAAATAATGGAAGGCGCGCCACC
1 ACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCGCCCCC
* *
1150842 GGGAACGCGCCTTCACCACTTTGCCAAGTCCCATCAGAAATAATAGGTATTGACATGAATAGTTC
66 GGGAACGCGCCTTCACCACTTTGCCAAGTCCCCTCAGAAATAATAGGTACTGACATGAATAGTTC
1150907 TTCGGGGG
131 TTCGGGGG
*
1150915 ACATGAGTGATATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCGCCCCC
1 ACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCGCCCCC
* * *
1150980 GAGAACGTGCTTTCACCACTTTGCCAAGTCCCCTCAGAAATAATAGGTACTGACATGAATAGTTC
66 GGGAACGCGCCTTCACCACTTTGCCAAGTCCCCTCAGAAATAATAGGTACTGACATGAATAGTTC
1151045 TTCGGGGG
131 TTCGGGGG
*
1151053 ACATGAATGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCGCCCCC
1 ACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCGCCCCC
** *
1151118 GGGAACGCATCTTCACCACTTTTCCAAGT-CCCTCAGAAATAATAGGTACTGACATGAATAGTTC
66 GGGAACGCGCCTTCACCACTTTGCCAAGTCCCCTCAGAAATAATAGGTACTGACATGAATAGTTC
*
1151182 -TCTGGGG
131 TTCGGGGG
*
1151189 ACAAGAGTGACATAATAGGGCAATGATAACATATT
1 ACATGAGTGACATAATAGGGCAATGATAACATATT
1151224 TGTTGAGTTA
Statistics
Matches: 410, Mismatches: 36, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
136 39 0.10
137 81 0.20
138 290 0.71
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (138 bp):
ACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCGCCCCC
GGGAACGCGCCTTCACCACTTTGCCAAGTCCCCTCAGAAATAATAGGTACTGACATGAATAGTTC
TTCGGGGG
Found at i:1152018 original size:19 final size:19
Alignment explanation
Indices: 1151994--1152051 Score: 82
Period size: 19 Copynumber: 3.1 Consensus size: 19
1151984 AATAGCCTGA
1151994 GTGCATCGATGCATTGCTT
1 GTGCATCGATGCATTGCTT
* *
1152013 GTGCATCGATGCA-TGGTAC
1 GTGCATCGATGCATTGCT-T
1152032 GTGCATCGATGCATTGCTT
1 GTGCATCGATGCATTGCTT
1152051 G
1 G
1152052 ATTGGTGCAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
18 3 0.09
19 27 0.82
20 3 0.09
ACGTcount: A:0.17, C:0.21, G:0.29, T:0.33
Consensus pattern (19 bp):
GTGCATCGATGCATTGCTT
Found at i:1152735 original size:21 final size:22
Alignment explanation
Indices: 1152711--1152754 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
1152701 AAATATAAAT
* *
1152711 ACAAACAAATTCAAAC-ATCCA
1 ACAAACAAAGTAAAACAATCCA
*
1152732 ACAATCAAAGTAAAACAATCCA
1 ACAAACAAAGTAAAACAATCCA
1152754 A
1 A
1152755 AACAAAAACA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.59, C:0.25, G:0.02, T:0.14
Consensus pattern (22 bp):
ACAAACAAAGTAAAACAATCCA
Found at i:1160710 original size:65 final size:64
Alignment explanation
Indices: 1160578--1160734 Score: 219
Period size: 65 Copynumber: 2.4 Consensus size: 64
1160568 TGCACTAAGG
* * * * *
1160578 GTGCATCAATGCATAAAATGCGTTCGATGTTTTAAAATAGCATGAGTGCATCGATGCATGGCTT
1 GTGCATCGATGCATAAAATGCATTCAATATTTTAAAATAACATGAGTGCATCGATGCATGGCTT
*
1160642 GTGCATCGATGCATAAAATGCATTCAATATTTTCATAAA-AACCTGAGTGCATCGATGCATGG-T
1 GTGCATCGATGCATAAAATGCATTCAATATTTT-A-AAATAACATGAGTGCATCGATGCATGGCT
1160705 AT
64 -T
1160707 GTGCATCGATGCATAAAATGCATTCAAT
1 GTGCATCGATGCATAAAATGCATTCAAT
1160735 GTTCAATTTA
Statistics
Matches: 84, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
64 30 0.36
65 51 0.61
66 3 0.04
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (64 bp):
GTGCATCGATGCATAAAATGCATTCAATATTTTAAAATAACATGAGTGCATCGATGCATGGCTT
Found at i:1161216 original size:16 final size:16
Alignment explanation
Indices: 1161192--1161230 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
1161182 ACAAAATAAT
*
1161192 GGAAGGCGCACCCCCA
1 GGAACGCGCACCCCCA
*
1161208 GGAACGCGCACCCCCG
1 GGAACGCGCACCCCCA
1161224 GGAACGC
1 GGAACGC
1161231 ACCTTCACCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.23, C:0.44, G:0.33, T:0.00
Consensus pattern (16 bp):
GGAACGCGCACCCCCA
Found at i:1164364 original size:25 final size:26
Alignment explanation
Indices: 1164326--1164413 Score: 72
Period size: 26 Copynumber: 3.4 Consensus size: 26
1164316 TATGTACACC
* * *
1164326 TAAATAATTTTTTTTTAATTTTTATT
1 TAAATAATTATTTTATAATATTTATT
*
1164352 TAAA-AATTATTTTATGATATTTATT
1 TAAATAATTATTTTATAATATTTATT
* * *
1164377 TAATATAA-TAATTAATATTATTTATT
1 TAA-ATAATTATTTTATAATATTTATT
*
1164403 ATAAAAAATTA
1 -TAAATAATTA
1164414 ATTATTAATT
Statistics
Matches: 49, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
25 20 0.41
26 22 0.45
27 7 0.14
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (26 bp):
TAAATAATTATTTTATAATATTTATT
Found at i:1164419 original size:21 final size:21
Alignment explanation
Indices: 1164393--1164434 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1164383 AATAATTAAT
*
1164393 ATTATTTATTATAAAAAATTA
1 ATTATTAATTATAAAAAATTA
* *
1164414 ATTATTAATTTTAAAATATTA
1 ATTATTAATTATAAAAAATTA
1164435 TAATAATTCC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
ATTATTAATTATAAAAAATTA
Found at i:1164657 original size:24 final size:25
Alignment explanation
Indices: 1164615--1164662 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
1164605 ATTAAGTGAT
* *
1164615 AAAATAAATAGATCGATAATAATAA
1 AAAATAAATAGATAGATAACAATAA
*
1164640 AAAAT-AATAGATATATAACAATA
1 AAAATAAATAGATAGATAACAATA
1164663 CGTGTAATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.65, C:0.04, G:0.06, T:0.25
Consensus pattern (25 bp):
AAAATAAATAGATAGATAACAATAA
Found at i:1166106 original size:19 final size:20
Alignment explanation
Indices: 1166082--1166138 Score: 57
Period size: 19 Copynumber: 2.9 Consensus size: 20
1166072 TATTCATTAG
1166082 ATTTAAATAAATTATTTA-T
1 ATTTAAATAAATTATTTATT
*
1166101 ATTTAATTAAA--ATTTATT
1 ATTTAAATAAATTATTTATT
1166119 ATTTATAAATAAATATATTT
1 A-TT-TAAATAAAT-TATTT
1166139 TAATTAATAG
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
17 5 0.17
18 2 0.07
19 12 0.40
20 7 0.23
23 4 0.13
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
ATTTAAATAAATTATTTATT
Found at i:1178803 original size:66 final size:66
Alignment explanation
Indices: 1178690--1178815 Score: 175
Period size: 66 Copynumber: 1.9 Consensus size: 66
1178680 TCCATAAGGA
*
1178690 ATTACCAGTCGGTATTGAACCTATAAAAGGAATTACCAACAGCGACTGTACCTGCCAGAGATAGG
1 ATTACCAGTCGGTATTGAACCTATAAAAGGAATTACCAACAGCGACTGAACCTGCCAGAGATAGG
1178755 G
66 G
* * **
1178756 ATTACCAGTCGGTGCA-T-AACCTATACAAGGAATTACCCACATTGACTGAACCTGCCAGAG
1 ATTACCAGTCGGT--ATTGAACCTATAAAAGGAATTACCAACAGCGACTGAACCTGCCAGAG
1178816 TCTTCATACC
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
66 51 0.96
67 1 0.02
68 1 0.02
ACGTcount: A:0.34, C:0.24, G:0.21, T:0.21
Consensus pattern (66 bp):
ATTACCAGTCGGTATTGAACCTATAAAAGGAATTACCAACAGCGACTGAACCTGCCAGAGATAGG
G
Found at i:1183409 original size:13 final size:13
Alignment explanation
Indices: 1183393--1183427 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
1183383 TTGCATCTCG
1183393 CATTTTGCACACC
1 CATTTTGCACACC
1183406 CATTTTGCACACC
1 CATTTTGCACACC
1183419 CATTTTGCA
1 CATTTTGCA
1183428 TTTACATATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.23, C:0.34, G:0.09, T:0.34
Consensus pattern (13 bp):
CATTTTGCACACC
Found at i:1186735 original size:43 final size:43
Alignment explanation
Indices: 1186670--1187230 Score: 836
Period size: 43 Copynumber: 13.0 Consensus size: 43
1186660 ATAAGAAACT
* * * * *
1186670 AAGCTTGAGGGACCAGCATGATATGTAGGGGTTCTTTGACGAG
1 AAGCTTGAGGGACCAACGTGATATGTAGGGGTTCCTTGATGAC
1186713 AAGCTTGAGGGACCAACGTGATATGTAGGGGTTCCTTGATGAC
1 AAGCTTGAGGGACCAACGTGATATGTAGGGGTTCCTTGATGAC
* *
1186756 AAGCTTAAGGGACCAATGTGATATGTAGGGGTTCCTTGATGAC
1 AAGCTTGAGGGACCAACGTGATATGTAGGGGTTCCTTGATGAC
* * *
1186799 AAGCTTGAGGGATCAACGTGATATATAGGGGTTACTTGATGAC
1 AAGCTTGAGGGACCAACGTGATATGTAGGGGTTCCTTGATGAC
* *
1186842 AAGCTTAAGGGACCAACGTGATATGTAGGGGTTTCTTGATGAC
1 AAGCTTGAGGGACCAACGTGATATGTAGGGGTTCCTTGATGAC
* * *
1186885 AAGATTGAGGGACCAACATTATATGTAGGGGTTCCTTGATGAC
1 AAGCTTGAGGGACCAACGTGATATGTAGGGGTTCCTTGATGAC
* * * * *
1186928 AAGCTTGATGAACGAACGTGATATGTATGGGTTCCTTGATGAT
1 AAGCTTGAGGGACCAACGTGATATGTAGGGGTTCCTTGATGAC
* *
1186971 AAGCTTGAGGGACCAACATGATATGTAGGGATTCCTTGATGAC
1 AAGCTTGAGGGACCAACGTGATATGTAGGGGTTCCTTGATGAC
* * *
1187014 AAGCTTGAGGGACCTACATGATATGTAGGGGTTACTTGATGAC
1 AAGCTTGAGGGACCAACGTGATATGTAGGGGTTCCTTGATGAC
* *
1187057 AAGATTAAGGGACCAACGTGATATGTAGGGGTTCCTTGATGAC
1 AAGCTTGAGGGACCAACGTGATATGTAGGGGTTCCTTGATGAC
*
1187100 AAGCTTGAGAGACCAACGTGATATGTAGGGGTTCCTTGATGAC
1 AAGCTTGAGGGACCAACGTGATATGTAGGGGTTCCTTGATGAC
*
1187143 AAGCTTGAGGGACCAACATGATATGTAGGGGTT-CTTGGATGAC
1 AAGCTTGAGGGACCAACGTGATATGTAGGGGTTCCTT-GATGAC
*
1187186 AAGCTTGAGGGACCAACGTGATAGGTAGGGGTTCCTTGATGAC
1 AAGCTTGAGGGACCAACGTGATATGTAGGGGTTCCTTGATGAC
1187229 AA
1 AA
1187231 CTAAGAAACT
Statistics
Matches: 465, Mismatches: 51, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
42 3 0.01
43 459 0.99
44 3 0.01
ACGTcount: A:0.28, C:0.14, G:0.31, T:0.27
Consensus pattern (43 bp):
AAGCTTGAGGGACCAACGTGATATGTAGGGGTTCCTTGATGAC
Found at i:1187310 original size:42 final size:41
Alignment explanation
Indices: 1187264--1187384 Score: 136
Period size: 42 Copynumber: 2.9 Consensus size: 41
1187254 AAGGGTTTCT
*
1187264 TGATGATTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCA
1 TGATGATTAAGTCCTTCAGGCCATCA-TAAGTCTTTCGAGCA
* * * *
1187306 TGATGCTTAAATCTTTCAGGTCATCTATAAGTCTTTCGAGCA
1 TGATGATTAAGTCCTTCAGGCCATC-ATAAGTCTTTCGAGCA
* * *
1187348 AGATGA-TAAGTCCTTCCGGCCATCCATAAGACTTTCG
1 TGATGATTAAGTCCTTCAGGCCAT-CATAAGTCTTTCG
1187385 GGCAGGATAT
Statistics
Matches: 65, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
41 24 0.37
42 40 0.62
43 1 0.02
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (41 bp):
TGATGATTAAGTCCTTCAGGCCATCATAAGTCTTTCGAGCA
Found at i:1187573 original size:42 final size:42
Alignment explanation
Indices: 1187527--1187611 Score: 102
Period size: 42 Copynumber: 2.0 Consensus size: 42
1187517 AAGGGTTTCT
*
1187527 TGATGAGTAAGTCCTTCGGGTCATC-AGTAAGTCTTTT-GAGCA
1 TGATGAGTAAATCCTTCGGGTCATCTA-TAAGT-TTTTCGAGCA
** *
1187569 TGATGTTTAAATCCTTCGGGTTATCTATAAGTTTTTCGAGCA
1 TGATGAGTAAATCCTTCGGGTCATCTATAAGTTTTTCGAGCA
1187611 T
1 T
1187612 ATGTTATTCA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
41 4 0.11
42 32 0.86
43 1 0.03
ACGTcount: A:0.24, C:0.15, G:0.22, T:0.39
Consensus pattern (42 bp):
TGATGAGTAAATCCTTCGGGTCATCTATAAGTTTTTCGAGCA
Found at i:1188710 original size:131 final size:131
Alignment explanation
Indices: 1188470--1188844 Score: 473
Period size: 131 Copynumber: 2.8 Consensus size: 131
1188460 CATCTCTCAC
* * * * * *
1188470 AGAAGGAGGTAGATCAGCACCGATATCTCGTTCGATTCCATCACAGAATGAGGTTGATCGACATT
1 AGAAGGAGGTAAATCAGCACCGAAATCTCGTTCGATTCTATCAAAGAAAGAGG-TGGTCGACATT
*
1188535 TTCATTTCACTCAAATCCATCGCATAAAGAGTTGGATCAACATCAACTTTTTGCTAGATTCTATC
65 TTCATTTCACTCAAATCCATCGCATAAGGAGTTGGATCAACATCAACTTTTTGCTAGATTCTATC
*
1188600 AT
130 AA
* * * * *
1188602 AGAAGGAGGTATATCAACACCGAAATCTCATTCGATTCTATCAAAGAAGGAGGTGGTCAACATTT
1 AGAAGGAGGTAAATCAGCACCGAAATCTCGTTCGATTCTATCAAAGAAAGAGGTGGTCGACATTT
* * * *
1188667 TCATTTCGCTCAAATCCATCGCATAAGGAGTTGGATCATCATCAATTTTTTGCTCGATTCTATCA
66 TCATTTCACTCAAATCCATCGCATAAGGAGTTGGATCAACATCAACTTTTTGCTAGATTCTATCA
1188732 A
131 A
* * * *
1188733 AGAATGAGGTAAATCAGCACCGACATCTCGTTCGATTCTATCACAA-AAAAAGGGGGATCGACAT
1 AGAAGGAGGTAAATCAGCACCGAAATCTCGTTCGATTCTATCA-AAGAAAGAGGTGG-TCGACAT
* * * * * *
1188797 TTTCATTTCACTCAAATCTATCACAGAAGGAGGTAGATCAACACCAAC
64 TTTCATTTCACTCAAATCCATCGCATAAGGAGTTGGATCAACATCAAC
1188845 ATCTTGTTCG
Statistics
Matches: 208, Mismatches: 33, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
131 115 0.55
132 93 0.45
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (131 bp):
AGAAGGAGGTAAATCAGCACCGAAATCTCGTTCGATTCTATCAAAGAAAGAGGTGGTCGACATTT
TCATTTCACTCAAATCCATCGCATAAGGAGTTGGATCAACATCAACTTTTTGCTAGATTCTATCA
A
Found at i:1188854 original size:88 final size:88
Alignment explanation
Indices: 1188725--1189073 Score: 436
Period size: 88 Copynumber: 4.0 Consensus size: 88
1188715 TTTGCTCGAT
* * * * * *
1188725 TCTATCAAAGAATGAGGTAAATCAGCACCGACATCTCGTTCGATTCTATCACAAAAAAAGGGGGA
1 TCTATCACAGAAGGAGGTAGATCAACACCAACATCTCGTTCGATTCTATCACAAAAAGAGGGGGA
1188790 TCGACATTTTCATTTCACTCAAA
66 TCGACATTTTCATTTCACTCAAA
* * *
1188813 TCTATCACAGAAGGAGGTAGATCAACACCAACATCTTGTTCGATT-TAATCACATAATGAGGGGG
1 TCTATCACAGAAGGAGGTAGATCAACACCAACATCTCGTTCGATTCT-ATCACAAAAAGAGGGGG
* *
1188877 ATCGAAATTTTCATTTTACTCAAA
65 ATCGACATTTTCATTTCACTCAAA
* * * *
1188901 TCTATCACAGAAGGAGGTAGATTAACACCAACATCTCATTCGATTCCATCACAAAAATAGGGGGA
1 TCTATCACAGAAGGAGGTAGATCAACACCAACATCTCGTTCGATTCTATCACAAAAAGAGGGGGA
* * *
1188966 TTGACATTTT-ATTTTCACTCGAC
66 TCGACATTTTCA-TTTCACTCAAA
** * * *
1188989 TCTATCACAGAAGGAGGTAGATCAACACTGACATCTCGTTCGATTAC-ATCACAGAAGGA-GGAG
1 TCTATCACAGAAGGAGGTAGATCAACACCAACATCTCGTTCGATT-CTATCACAAAAAGAGGGGG
1189052 ATCGACATTTTCATTTCACTCA
65 ATCGACATTTTCATTTCACTCA
1189074 TCCCCCGTAT
Statistics
Matches: 223, Mismatches: 33, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
87 23 0.10
88 199 0.89
89 1 0.00
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.28
Consensus pattern (88 bp):
TCTATCACAGAAGGAGGTAGATCAACACCAACATCTCGTTCGATTCTATCACAAAAAGAGGGGGA
TCGACATTTTCATTTCACTCAAA
Found at i:1192569 original size:14 final size:15
Alignment explanation
Indices: 1192550--1192585 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
1192540 AGTCAACTGC
*
1192550 TTGACTCGGA-CGGG
1 TTGACTCGGACCGAG
1192564 TTGACTCGGACCGAG
1 TTGACTCGGACCGAG
1192579 TTGACTC
1 TTGACTC
1192586 TATGACTGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 10 0.50
15 10 0.50
ACGTcount: A:0.17, C:0.25, G:0.33, T:0.25
Consensus pattern (15 bp):
TTGACTCGGACCGAG
Found at i:1198663 original size:5 final size:5
Alignment explanation
Indices: 1198647--1198680 Score: 59
Period size: 5 Copynumber: 6.6 Consensus size: 5
1198637 AGCACCATGG
1198647 AAGAA GAAGAA AAGAA AAGAA AAGAA AAGAA AAG
1 AAGAA -AAGAA AAGAA AAGAA AAGAA AAGAA AAG
1198681 CTTAAACTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 23 0.82
6 5 0.18
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (5 bp):
AAGAA
Found at i:1201413 original size:16 final size:15
Alignment explanation
Indices: 1201389--1201422 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
1201379 AAAGCTAGAA
1201389 AAGAAAAACAAAGACG
1 AAGAAAAACAAAGA-G
*
1201405 AAGAGAAACAAAGAG
1 AAGAAAAACAAAGAG
1201420 AAG
1 AAG
1201423 GAGGGTGTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.68, C:0.09, G:0.24, T:0.00
Consensus pattern (15 bp):
AAGAAAAACAAAGAG
Found at i:1204758 original size:15 final size:15
Alignment explanation
Indices: 1204714--1204758 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
1204704 ATATGAGAAA
* *
1204714 AATTCAATTCAATTC
1 AATTCAATTTAATTT
*
1204729 AATTCAAATTAATTT
1 AATTCAATTTAATTT
*
1204744 AATTTAATTTAATTT
1 AATTCAATTTAATTT
1204759 TAAAATAACG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.49
Consensus pattern (15 bp):
AATTCAATTTAATTT
Found at i:1207825 original size:14 final size:14
Alignment explanation
Indices: 1207806--1207832 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1207796 TAATCCGAAT
1207806 CTAGATCTAATCAA
1 CTAGATCTAATCAA
1207820 CTAGATCTAATCA
1 CTAGATCTAATCA
1207833 TAAAAAGTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.22, G:0.07, T:0.30
Consensus pattern (14 bp):
CTAGATCTAATCAA
Found at i:1209007 original size:182 final size:183
Alignment explanation
Indices: 1208541--1209015 Score: 668
Period size: 183 Copynumber: 2.6 Consensus size: 183
1208531 GATCTAAATT
* * * * **
1208541 AAAAATATATCGATTC-ACAATGATATAACAGGTAAAACTATGACAAAACCAGTATTGAAATGAT
1 AAAAATATATCGA-TCAACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGAT
* * * * * * *
1208605 AAAACCGGTAAAGCGGTACCGAATATATTTAAAGTGTCGGTACTTTAATATAAAGGATTGACACT
65 AAAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTTAATATAAAGAATCGACACT
* *
1208670 TCGTTAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTTTCA
130 TCGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTTTAA
* *
1208724 AAAAATATATCGATCAACAACGATATAACAGGTAAAAATATGATAAAACTGGTATCAAAATGATG
1 AAAAATATATCGATCAACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* * *
1208789 AAACCGGTAAAACGCTACCGGATATATTGAAAGTGTCGAAACTTT-ATAT-AAGAATCGACACTT
66 AAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTTAATATAAAGAATCGACACTT
*
1208852 TGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTTTAA
131 CGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTTTAA
* *
1208905 AAAAATGTATCGATCAAACAACGATATAACATGTAAAAATATGATAAAACCGGTATCAAAATGAT
1 AAAAATATATCGATC-AACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGAT
* * **
1208970 AAAACTGGTAAAATGATATTGGATATATTAAAAGTGTCGATACTTT
65 AAAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTT
1209016 CGTAAGTACG
Statistics
Matches: 260, Mismatches: 30, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
181 76 0.29
182 91 0.35
183 93 0.36
ACGTcount: A:0.43, C:0.13, G:0.16, T:0.28
Consensus pattern (183 bp):
AAAAATATATCGATCAACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
AAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTTAATATAAAGAATCGACACTT
CGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTTTAA
Found at i:1211141 original size:15 final size:15
Alignment explanation
Indices: 1211121--1211153 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
1211111 TGGTTGTATT
*
1211121 GGGGGATGACGGTGA
1 GGGGGACGACGGTGA
1211136 GGGGGACGACGGTGA
1 GGGGGACGACGGTGA
1211151 GGG
1 GGG
1211154 AAAACAGAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.18, C:0.09, G:0.64, T:0.09
Consensus pattern (15 bp):
GGGGGACGACGGTGA
Found at i:1211264 original size:21 final size:21
Alignment explanation
Indices: 1211238--1211278 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
1211228 AAGACAATCA
1211238 AGAGTCGAAGAGAAACTTGAT
1 AGAGTCGAAGAGAAACTTGAT
1211259 AGAGTCGAAGAGAAACTTGA
1 AGAGTCGAAGAGAAACTTGA
1211279 GAGGCATTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.44, C:0.10, G:0.29, T:0.17
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAT
Found at i:1211357 original size:33 final size:33
Alignment explanation
Indices: 1211315--1211380 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
1211305 AAATAGATGG
*
1211315 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
*
1211348 AGTGGTGAAAGAAGTTGAGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
1211381 TCTTAAGATG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.30, C:0.00, G:0.47, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:1211611 original size:33 final size:33
Alignment explanation
Indices: 1211573--1211646 Score: 130
Period size: 33 Copynumber: 2.2 Consensus size: 33
1211563 TATGAAGAAG
1211573 AAAAGAGGGAGGAGGAAGAAGAAGAGATGGAAA
1 AAAAGAGGGAGGAGGAAGAAGAAGAGATGGAAA
*
1211606 AAAAGAGGGAGGAGGAAGAAGAAGAGATGGAAG
1 AAAAGAGGGAGGAGGAAGAAGAAGAGATGGAAA
*
1211639 AAATGAGG
1 AAAAGAGG
1211647 AAGAAAGAAG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.53, C:0.00, G:0.43, T:0.04
Consensus pattern (33 bp):
AAAAGAGGGAGGAGGAAGAAGAAGAGATGGAAA
Found at i:1213236 original size:19 final size:20
Alignment explanation
Indices: 1213212--1213260 Score: 84
Period size: 19 Copynumber: 2.5 Consensus size: 20
1213202 AATGTAGGGT
1213212 TAATTTTGTATTA-GATTTA
1 TAATTTTGTATTACGATTTA
1213231 TAATTTTGTA-TACGATTTA
1 TAATTTTGTATTACGATTTA
1213250 TAATTTTGTAT
1 TAATTTTGTAT
1213261 GTGAATGTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 2 0.07
19 26 0.93
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (20 bp):
TAATTTTGTATTACGATTTA
Found at i:1213838 original size:200 final size:200
Alignment explanation
Indices: 1213495--1216481 Score: 5427
Period size: 200 Copynumber: 14.9 Consensus size: 200
1213485 AATTTACAAT
*
1213495 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAGAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAGGTGTCGATCCCAGAAACAT
* * *
1213560 TGAAACCCATAAGTATAATGTAATTGGTAATTTTTCAATCTAACCGGTATAAGTATATCGGATTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACCGGATTT
*
1213625 ATGAGAGAATAGGTGTAATATATGTATCCACACTTTTTAATTTTGTGTCGATACTATTGGTCCAG
131 ATGAGAGAATAGGTGTAATATATGTATCGACACTTTTTAATTTTGTGTCGATACTATTGGTCCAG
*
1213690 AATAA
196 AATGA
*
1213695 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAGGTGTCGATCCCAAAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAGGTGTCGATCCCAGAAACAT
*
1213760 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAATCGGTATAAGTATACCGGATTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACCGGATTT
1213825 ATGAGAGAATAGGTGTAATATATGTATCGACACTTTTTAATTTTGTGTCGATACTATTGGTCCAG
131 ATGAGAGAATAGGTGTAATATATGTATCGACACTTTTTAATTTTGTGTCGATACTATTGGTCCAG
1213890 AATGA
196 AATGA
* * * *
1213895 ATAGCAAACAAGGTACAATCATAAAGTGTCGATCCATATATAAAAGGTGTCGATCCCAGAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAGGTGTCGATCCCAGAAACAT
*
1213960 TGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACCGGATTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACCGGATTT
** *
1214025 ATGAGAGAATAGGTGTAATATAAATATCCACACTTTTTAATTTTGTGTCGATACTATTGGTCCAG
131 ATGAGAGAATAGGTGTAATATATGTATCGACACTTTTTAATTTTGTGTCGATACTATTGGTCCAG
1214090 AATGA
196 AATGA
*
1214095 ATGGCAAACAGGGTGAAACCATAAAGTGTCGATCCATATATAAAAGGTGTCGATCCCAGAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAGGTGTCGATCCCAGAAACAT
*
1214160 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACAGGATTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACCGGATTT
*
1214225 ATGAGAGAATAGGTGTAATATATATATCGACACTTTTTAATTTTGTGTCGATACTATTGGTCCAG
131 ATGAGAGAATAGGTGTAATATATGTATCGACACTTTTTAATTTTGTGTCGATACTATTGGTCCAG
1214290 AATGA
196 AATGA
* *
1214295 ATGGCAAACAGGGTGCAACCAGAAAGTGTCGATCCATATATAAAAGGTGTCGATCCTAGAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAGGTGTCGATCCCAGAAACAT
*
1214360 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGATATAAGTATACCGGATTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACCGGATTT
* *
1214425 ATGAGAGAATATGTGTAATATATGTATCGACACTTTTTAATTTTATGTCGATACTATTGGTCCAG
131 ATGAGAGAATAGGTGTAATATATGTATCGACACTTTTTAATTTTGTGTCGATACTATTGGTCCAG
1214490 AATGA
196 AATGA
1214495 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAGGTGTCGATCCCAGAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAGGTGTCGATCCCAGAAACAT
*
1214560 CGAAACCCATAAGTATAATGTAATAGGTAGTTTTTCAATCTAACCGGTATAAGTATACCGGATTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACCGGATTT
1214625 ATGAGAGAATAGGTGTAATATATGTATCGACACTTTTTAATTTTGTGTCGATACTATTGGTCCAG
131 ATGAGAGAATAGGTGTAATATATGTATCGACACTTTTTAATTTTGTGTCGATACTATTGGTCCAG
1214690 AATGA
196 AATGA
*
1214695 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAGGTGTTGATCCCAGAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAGGTGTCGATCCCAGAAACAT
* * *
1214760 CGAAACCCATAAGTATAATGTAATACGTAATTTTTCAATCTAACTGGTATAAGTATATCGGATTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACCGGATTT
* *
1214825 ATGAGAGAATATGTGTAATATATGTATCGATACTTTTTAATTTTGTGTCGATACTATTGGTCCAG
131 ATGAGAGAATAGGTGTAATATATGTATCGACACTTTTTAATTTTGTGTCGATACTATTGGTCCAG
1214890 AATGA
196 AATGA
* * *
1214895 ATGGCAAACAGTGTACAACCATAAAGTGTCGATCCATATATAAAAGATGTCGATCCCAGAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAGGTGTCGATCCCAGAAACAT
1214960 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACCGGATTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACCGGATTT
** *
1215025 ATGAGAGAATAGGTGTAATATAAATATCCACACTTTTTAATTTTGTGTCGATACTATTGGTCCAG
131 ATGAGAGAATAGGTGTAATATATGTATCGACACTTTTTAATTTTGTGTCGATACTATTGGTCCAG
1215090 AATGA
196 AATGA
*
1215095 ATGGCAAACAGGGTGAAACCATAAAGTGTCGATCCATATATAAAAGGTGTCGATCCCAGAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAGGTGTCGATCCCAGAAACAT
*
1215160 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACAGGATTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACCGGATTT
1215225 ATGAGAGAATAGGTGTAATATATGTATCGACACTTTTTAATTTTGTGTCGATACTATTGGTCCAG
131 ATGAGAGAATAGGTGTAATATATGTATCGACACTTTTTAATTTTGTGTCGATACTATTGGTCCAG
*
1215290 AATAA
196 AATGA
* *
1215295 ATGGCAAACAGGGTGCAACCAGAAAGTGTCGATCCATATATAAAAGGTGTCGATCCTAGAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAGGTGTCGATCCCAGAAACAT
1215360 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACCGGATTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACCGGATTT
1215425 ATGAGAGAATAGGTGTAATATATGTATCGACACTTTTTAATTTTGTGTCGATACTATTGGTCCAG
131 ATGAGAGAATAGGTGTAATATATGTATCGACACTTTTTAATTTTGTGTCGATACTATTGGTCCAG
1215490 AATGA
196 AATGA
1215495 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAGGTGTCGATCCCAGAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAGGTGTCGATCCCAGAAACAT
1215560 CGAAA-CCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACCGGATTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACCGGATTT
1215624 ATGAGAGAATAGGTGTAATATATGTATCGACACTTTTTAATTTTGTGTCGATACTATTGGTCCAG
131 ATGAGAGAATAGGTGTAATATATGTATCGACACTTTTTAATTTTGTGTCGATACTATTGGTCCAG
1215689 AATGA
196 AATGA
1215694 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAGGTGTCGATCCCAGAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAGGTGTCGATCCCAGAAACAT
* *
1215759 CGAAACCCATAAGTATAATGTAATACGTAATTTTTCAATCTAACCGGTATAAGTATATCGGATTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACCGGATTT
1215824 ATGAGAGAATAGGTGTAATATATGTATCGACACTTTTTAATTTTGTGTCGATACTATTGGTCCAG
131 ATGAGAGAATAGGTGTAATATATGTATCGACACTTTTTAATTTTGTGTCGATACTATTGGTCCAG
1215889 AATGA
196 AATGA
* * *
1215894 ATGGCAAACAGGGTACAACCATAAAGTGTCGATCCATATATAAAAGATGTCGACCCCAGAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAGGTGTCGATCCCAGAAACAT
*
1215959 CGAAACCCATAAGTATAATGTATTAGGTAATTTTTCAATCTAACCGGTATAAGTATACCGGATTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACCGGATTT
1216024 ATGAGAGAATAGGTGTAATATATGTATCGACACTTTTTAATTTTGTGTCGATACTATTGGTCCAG
131 ATGAGAGAATAGGTGTAATATATGTATCGACACTTTTTAATTTTGTGTCGATACTATTGGTCCAG
1216089 AATGA
196 AATGA
* *
1216094 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCAAGAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAGGTGTCGATCCCAGAAACAT
1216159 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACCGGATTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACCGGATTT
* * *
1216224 ATAAGAGAATAGGTGTAATATATGTATCGATACGTTTTAATTTTGTGTCGATACTATTGGTCCAG
131 ATGAGAGAATAGGTGTAATATATGTATCGACACTTTTTAATTTTGTGTCGATACTATTGGTCCAG
*
1216289 AATAA
196 AATGA
* *
1216294 ATGGAAAATAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAGGTGTCGATCCCAGAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAGGTGTCGATCCCAGAAACAT
* *
1216359 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATATAACCGATATAAGTATACCGGATTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACCGGATTT
* *
1216424 ATGAGAGAATAAGTGTAATATATGTACCGACACTTTTTAATTTTGTGTCGATACTATT
131 ATGAGAGAATAGGTGTAATATATGTATCGACACTTTTTAATTTTGTGTCGATACTATT
1216482 TTTAAATATC
Statistics
Matches: 2681, Mismatches: 105, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
199 199 0.07
200 2482 0.93
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.30
Consensus pattern (200 bp):
ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAGGTGTCGATCCCAGAAACAT
CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACCGGATTT
ATGAGAGAATAGGTGTAATATATGTATCGACACTTTTTAATTTTGTGTCGATACTATTGGTCCAG
AATGA
Found at i:1218017 original size:12 final size:12
Alignment explanation
Indices: 1217995--1218034 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
1217985 CAAGCGGTCA
*
1217995 ATGAAGATGAAG
1 ATGACGATGAAG
*
1218007 CTGACGATGAAG
1 ATGACGATGAAG
*
1218019 ATGACGATGATG
1 ATGACGATGAAG
1218031 ATGA
1 ATGA
1218035 TGATAATGAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.40, C:0.07, G:0.33, T:0.20
Consensus pattern (12 bp):
ATGACGATGAAG
Found at i:1218033 original size:18 final size:18
Alignment explanation
Indices: 1217995--1218034 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
1217985 CAAGCGGTCA
*
1217995 ATGAAGATGAAGCTGACG
1 ATGAAGATGAAGATGACG
* *
1218013 ATGAAGATGACGATGATG
1 ATGAAGATGAAGATGACG
1218031 ATGA
1 ATGA
1218035 TGATAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.40, C:0.07, G:0.33, T:0.20
Consensus pattern (18 bp):
ATGAAGATGAAGATGACG
Found at i:1221175 original size:182 final size:182
Alignment explanation
Indices: 1220540--1221379 Score: 1418
Period size: 182 Copynumber: 4.6 Consensus size: 182
1220530 TTTTACATTT
* * *
1220540 TTTAAAAGAGAAGAAGTTATATCGTCAATAAAGTGTCGATACTTTGTAAAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
* *
1220605 AACAATATAACAGGTAAAAATATGACAAAACCAGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
66 AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
*
1220670 CGGTTATGTTGAAAGTGTCGATAATTTATTATATGTATCGACACTTTTGGAA
131 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
1220722 TTTAAAAGAGAAG-AGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
* * *
1220786 AACAATATAACATGTAAAAATATGACAAAATCGGTCTCGAAATAACAAAACAGGTAAAGCGTTAC
66 AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
1220851 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCG--ACTTTTGGAA
131 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
* *
1220901 -TTAATAAGAGAAGAAGTTATAGCGCCAATAACGTGTTGATACTTTATAAAAATGTATCGATCCA
1 TTTAA-AAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCA
* *
1220965 TAACAATATAATATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAATAGGTAAAGCGCTA
65 TAACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTA
1221030 CCGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
130 CCGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
* *
1221083 TTTAAAAGAGAAGAAGTTATAGTGCCAATAAAGTGTCGATATTTTATAAAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
* * *
1221148 AACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACATGTAAAGAGCTAC
66 AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
*
1221213 CGGATATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
131 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
1221265 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
* * * * **
1221330 AATATTATAACATGTAAAAATATGATAAAATCGGTCTATAAATGACAAAA
66 AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAA
1221380 GGTGAACGCA
Statistics
Matches: 618, Mismatches: 35, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
178 4 0.01
179 18 0.03
180 149 0.24
181 147 0.24
182 296 0.48
183 4 0.01
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (182 bp):
TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
Found at i:1221613 original size:87 final size:87
Alignment explanation
Indices: 1221515--1221677 Score: 299
Period size: 87 Copynumber: 1.9 Consensus size: 87
1221505 AAATAGGTCA
1221515 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
*
1221580 CCGGTTAAATACTTATTTTATT
66 ACGGTTAAATACTTATTTTATT
* *
1221602 ATATAAGCGCTATCTATTACATTATATAAGCGTTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
1221667 ACGGTTAAATA
66 ACGGTTAAATA
1221678 ATATAACATA
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
87 73 1.00
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.42
Consensus pattern (87 bp):
ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
ACGGTTAAATACTTATTTTATT
Found at i:1221649 original size:23 final size:23
Alignment explanation
Indices: 1221599--1221643 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
1221589 TACTTATTTT
* *
1221599 ATTATATAAGCGCTATCTATTAC
1 ATTATATAAGCGCTACCTAATAC
*
1221622 ATTATATAAGCGTTACCTAATA
1 ATTATATAAGCGCTACCTAATA
1221644 TGTTATTGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTAATAC
Found at i:1223556 original size:29 final size:29
Alignment explanation
Indices: 1223524--1223598 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 29
1223514 TTTAAAAAAT
1223524 TTACTAAAATAGA-ACCCTTTT-CAGAATAA
1 TTACTAAAATA-ACACCCTTTTCCA-AATAA
*
1223553 TTACTAGAATAACACCCTTTTCCAAATAA
1 TTACTAAAATAACACCCTTTTCCAAATAA
* *
1223582 TTACCAGAATAACACCC
1 TTACTAAAATAACACCC
1223599 GGTCAACGGT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
28 1 0.02
29 39 0.93
30 2 0.05
ACGTcount: A:0.43, C:0.24, G:0.05, T:0.28
Consensus pattern (29 bp):
TTACTAAAATAACACCCTTTTCCAAATAA
Found at i:1230659 original size:29 final size:29
Alignment explanation
Indices: 1230600--1230753 Score: 99
Period size: 29 Copynumber: 5.6 Consensus size: 29
1230590 AACCACCATT
* *
1230600 TTACGAAAATAGCATCA-TTTCAAAAAAA
1 TTACCAAAATAGCACCATTTTCAAAAAAA
* *
1230628 TTACCAAAATATCACCATTTTCAAAATAA
1 TTACCAAAATAGCACCATTTTCAAAAAAA
* * *** *
1230657 TTACTAAAATATCATTTTTTATAAAAAAAA
1 TTACCAAAATAGCACCATTT-TCAAAAAAA
* *
1230687 TTA-CGAAAT-----TATTTT-AAAAAAA
1 TTACCAAAATAGCACCATTTTCAAAAAAA
* * *
1230709 TTACAAAAATAGCACCATTTTCCAAATAA
1 TTACCAAAATAGCACCATTTTCAAAAAAA
*
1230738 TTACCAGAATAGCACC
1 TTACCAAAATAGCACC
1230754 CGGTCAACGG
Statistics
Matches: 97, Mismatches: 20, Indels: 17
0.72 0.15 0.13
Matches are distributed among these distances:
22 10 0.10
23 5 0.05
24 4 0.04
28 19 0.20
29 49 0.51
30 10 0.10
ACGTcount: A:0.50, C:0.16, G:0.04, T:0.31
Consensus pattern (29 bp):
TTACCAAAATAGCACCATTTTCAAAAAAA
Found at i:1235513 original size:32 final size:31
Alignment explanation
Indices: 1235464--1235533 Score: 79
Period size: 32 Copynumber: 2.2 Consensus size: 31
1235454 TTATAAAAAA
* *
1235464 TTCAAGGATTTAATTGATTAAATTTAACAAAG
1 TTCAAGGATTTAATTGATCAAACTTAAC-AAG
* *
1235496 TTCATGGA-TTAATTTGATCAAACTTATCAAG
1 TTCAAGGATTTAA-TTGATCAAACTTAACAAG
1235527 TTCAAGG
1 TTCAAGG
1235534 GTCAGTATGT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
31 13 0.41
32 19 0.59
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.37
Consensus pattern (31 bp):
TTCAAGGATTTAATTGATCAAACTTAACAAG
Found at i:1239939 original size:16 final size:16
Alignment explanation
Indices: 1239920--1239973 Score: 63
Period size: 16 Copynumber: 3.4 Consensus size: 16
1239910 TTAGTGAAAT
1239920 CGAAATCAACCCGAAC
1 CGAAATCAACCCGAAC
*
1239936 CGAAATTAACCCGAAC
1 CGAAATCAACCCGAAC
* * **
1239952 CAAAAGCAACATGAAC
1 CGAAATCAACCCGAAC
1239968 CGAAAT
1 CGAAAT
1239974 AAATCCAAAC
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.48, C:0.30, G:0.13, T:0.09
Consensus pattern (16 bp):
CGAAATCAACCCGAAC
Found at i:1240094 original size:18 final size:19
Alignment explanation
Indices: 1240055--1240111 Score: 57
Period size: 18 Copynumber: 3.1 Consensus size: 19
1240045 ATAATAAATT
*
1240055 AATTTA-AATAAAATTGAT-
1 AATTTATAATAAAA-TAATA
* *
1240073 AATTTATTA-AAAATATTA
1 AATTTATAATAAAATAATA
1240091 AATTTATAATAAAATAATA
1 AATTTATAATAAAATAATA
1240110 AA
1 AA
1240112 ACGTTTAAGA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
17 2 0.06
18 18 0.58
19 11 0.35
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.39
Consensus pattern (19 bp):
AATTTATAATAAAATAATA
Found at i:1243088 original size:2 final size:2
Alignment explanation
Indices: 1243081--1243132 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
1243071 ACATACATAC
1243081 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
1243123 AT AT AT AT AT
1 AT AT AT AT AT
1243133 TTGTGTCGGG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1245603 original size:3 final size:3
Alignment explanation
Indices: 1245592--1245639 Score: 51
Period size: 3 Copynumber: 15.0 Consensus size: 3
1245582 TTTTTTTACT
* *
1245592 TAA TGA TAA TAA TAAA TAA TAA TAA TAA TAA TAAA TAA CAAA TAA TAA
1 TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA T-AA TAA -TAA TAA TAA
1245640 GAAATAACAA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
3 30 0.79
4 8 0.21
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:1245611 original size:7 final size:7
Alignment explanation
Indices: 1245599--1245639 Score: 59
Period size: 7 Copynumber: 6.1 Consensus size: 7
1245589 ACTTAATGAT
1245599 AATAATA
1 AATAATA
1245606 AATAAT-
1 AATAATA
1245612 AATAAT-
1 AATAATA
1245618 AATAATA
1 AATAATA
*
1245625 AATAACA
1 AATAATA
1245632 AATAATA
1 AATAATA
1245639 A
1 A
1245640 GAAATAACAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
6 12 0.39
7 19 0.61
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (7 bp):
AATAATA
Found at i:1245619 original size:19 final size:20
Alignment explanation
Indices: 1245592--1245639 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
1245582 TTTTTTTACT
*
1245592 TAATGATAATAATAAATAA-
1 TAATAATAATAATAAATAAC
1245611 TAATAATAATAATAAATAAC
1 TAATAATAATAATAAATAAC
*
1245631 AAATAATAA
1 TAATAATAA
1245640 GAAATAACAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 18 0.69
20 8 0.31
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (20 bp):
TAATAATAATAATAAATAAC
Found at i:1245888 original size:72 final size:72
Alignment explanation
Indices: 1245793--1246312 Score: 634
Period size: 72 Copynumber: 7.2 Consensus size: 72
1245783 GACTCCTACA
*
1245793 ATGGAATTGAGCAACAAGTTCTTCTCATTATGAACTTTTTCTCTGGGAAATGTTGATCCAACTCC
1 ATGGAATCGAGCAACAAGTTCTTCTCATTATGAACTTTTTCTCTGGGAAATGTTGATCCAACTCC
1245858 TTTTGTG
66 TTTTGTG
** *
1245865 ATGGAATCGAGCAACAAACTCTTCTCATTATGAACTTTTTCTCTGGTAAAT-TCTGATCCAACT-
1 ATGGAATCGAGCAACAAGTTCTTCTCATTATGAACTTTTTCTCTGGGAAATGT-TGATCCAACTC
*
1245928 CTTTCTATG
65 CTTT-TGTG
* * * * * *** * * * *
1245937 ATGGAATCTAGCTACAAGTTCTTCTTATTATAAACTTATTCTCCAAGAAATTTTTATCAAACTCT
1 ATGGAATCGAGCAACAAGTTCTTCTCATTATGAACTTTTTCTCTGGGAAATGTTGATCCAACTCC
*
1246002 TTTTGAG
66 TTTTGTG
* * *
1246009 ATGGAATCGAGCAACAAGTTCTTCTCATTATGAACTTCTTCTCT-GGAAATGTTAATCCAACTTC
1 ATGGAATCGAGCAACAAGTTCTTCTCATTATGAACTTTTTCTCTGGGAAATGTTGATCCAACTCC
* *
1246073 TTCTGTT
66 TTTTGTG
* * *
1246080 ATGGAATCGAGAAACAAGTTCTTCTCATTATGAACTTCTTCTCTGGGAAATGTTGATCCAAATCC
1 ATGGAATCGAGCAACAAGTTCTTCTCATTATGAACTTTTTCTCTGGGAAATGTTGATCCAACTCC
*
1246145 TTCTGTG
66 TTTTGTG
* * *
1246152 ATGGAATCGAGCAAAAAGTTCTTCTCATTATGAACTTTTTTCTCTGGGAAATGTTAATCAAACTC
1 ATGGAATCGAGCAACAAGTTCTTCTCATTATGAAC-TTTTTCTCTGGGAAATGTTGATCCAACTC
*
1246217 CTTCTGTG
65 CTTTTGTG
* * * * *
1246225 ATGGAACCGAGCAACAAGTTCTTCTCGTTATGAATTTTTTCTCTAGGG-AATATTGATCCAACTT
1 ATGGAATCGAGCAACAAGTTCTTCTCATTATGAACTTTTTCTCT-GGGAAATGTTGATCCAACTC
*
1246289 CTTTTGTA
65 CTTTTGTG
*
1246297 ATGGAATCGAGTAACA
1 ATGGAATCGAGCAACA
1246313 GTTGAATGGG
Statistics
Matches: 382, Mismatches: 59, Indels: 14
0.84 0.13 0.03
Matches are distributed among these distances:
71 66 0.17
72 245 0.64
73 71 0.19
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.38
Consensus pattern (72 bp):
ATGGAATCGAGCAACAAGTTCTTCTCATTATGAACTTTTTCTCTGGGAAATGTTGATCCAACTCC
TTTTGTG
Found at i:1249396 original size:19 final size:19
Alignment explanation
Indices: 1249372--1249414 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
1249362 GTTAATAAAT
1249372 GACTCTTTCTTTTTTTCTG
1 GACTCTTTCTTTTTTTCTG
1249391 GACTCTTTCTTTTTTTCTG
1 GACTCTTTCTTTTTTTCTG
1249410 GACTC
1 GACTC
1249415 ATCATGTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.07, C:0.23, G:0.12, T:0.58
Consensus pattern (19 bp):
GACTCTTTCTTTTTTTCTG
Found at i:1251943 original size:206 final size:206
Alignment explanation
Indices: 1251589--1251985 Score: 740
Period size: 206 Copynumber: 1.9 Consensus size: 206
1251579 CGAGTTTTCT
*
1251589 ATGGGAAGTCTTTGCAGAGTGGCTAAAAGCATAATGTTTAATGCATACCCATTGTCTATTATAAA
1 ATGGGAAGTCTTTGCAGAGTGGCTAAAAGCATAATGTTTAATGCATACCCATTATCTATTATAAA
* * *
1251654 CCCTGACAATATATGTCCATGGCAGTGAGTGATGATATTCAAAGCTTTAACACGCCTCATTCCAC
66 CCCTGACAATACATGGCCATGGCAGTGAGTGATGATATTCAAAGCATTAACACGCCTCATTCCAC
1251719 CTTTAAGGATCTCGTCATCAACGAATGTGATGTAGTTATTAGCATCTATATGTCCTACTATAACC
131 CTTTAAGGATCTCGTCATCAACGAATGTGATGTAGTTATTAGCATCTATATGTCCTACTATAACC
1251784 TCTGACAATAC
196 TCTGACAATAC
*
1251795 ATGGGAAGTCTTTGCAGAGTGGCTAAAAGCATAATGTTTAATGCATACCCATTATCTATTATAAC
1 ATGGGAAGTCTTTGCAGAGTGGCTAAAAGCATAATGTTTAATGCATACCCATTATCTATTATAAA
*
1251860 CCCTGACAATACATGGCCATGGCAGTGAGTGGTGATATTCAAAGCATTAACACGCCTCATTCCAC
66 CCCTGACAATACATGGCCATGGCAGTGAGTGATGATATTCAAAGCATTAACACGCCTCATTCCAC
1251925 CTTTAAGGATCTCGTCATCAACGAATGTGATGTAGTTATTAGCATCTATATGTCCTACTAT
131 CTTTAAGGATCTCGTCATCAACGAATGTGATGTAGTTATTAGCATCTATATGTCCTACTAT
1251986 TCGATCGAGC
Statistics
Matches: 185, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
206 185 1.00
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31
Consensus pattern (206 bp):
ATGGGAAGTCTTTGCAGAGTGGCTAAAAGCATAATGTTTAATGCATACCCATTATCTATTATAAA
CCCTGACAATACATGGCCATGGCAGTGAGTGATGATATTCAAAGCATTAACACGCCTCATTCCAC
CTTTAAGGATCTCGTCATCAACGAATGTGATGTAGTTATTAGCATCTATATGTCCTACTATAACC
TCTGACAATAC
Found at i:1257734 original size:13 final size:13
Alignment explanation
Indices: 1257716--1257776 Score: 113
Period size: 13 Copynumber: 4.7 Consensus size: 13
1257706 TGATTATAGT
*
1257716 TCTCCTTTCAGCC
1 TCTCCTTTCAGTC
1257729 TCTCCTTTCAGTC
1 TCTCCTTTCAGTC
1257742 TCTCCTTTCAGTC
1 TCTCCTTTCAGTC
1257755 TCTCCTTTCAGTC
1 TCTCCTTTCAGTC
1257768 TCTCCTTTC
1 TCTCCTTTC
1257777 TTTTGCATAC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
13 47 1.00
ACGTcount: A:0.07, C:0.41, G:0.07, T:0.46
Consensus pattern (13 bp):
TCTCCTTTCAGTC
Found at i:1260272 original size:15 final size:14
Alignment explanation
Indices: 1260247--1260281 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
1260237 TTTTGCTTAA
1260247 TAATAAATAATAAT
1 TAATAAATAATAAT
1260261 TAATATAATAATAAT
1 TAATA-AATAATAAT
*
1260276 AAATAA
1 TAATAA
1260282 CGAAAAATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
TAATAAATAATAAT
Found at i:1266604 original size:22 final size:23
Alignment explanation
Indices: 1266579--1266622 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
1266569 AATTAAGTTT
1266579 TAATCTTA-AAA-TAATTTCAAAA
1 TAATCTTACAAAGT-ATTTCAAAA
*
1266601 TAATTTTACAAAGTATTTCAAA
1 TAATCTTACAAAGTATTTCAAA
1266623 CCATTTCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 7 0.37
23 11 0.58
24 1 0.05
ACGTcount: A:0.50, C:0.09, G:0.02, T:0.39
Consensus pattern (23 bp):
TAATCTTACAAAGTATTTCAAAA
Found at i:1267843 original size:10 final size:10
Alignment explanation
Indices: 1267830--1267864 Score: 61
Period size: 10 Copynumber: 3.5 Consensus size: 10
1267820 AGTCGGGTCA
*
1267830 GGTCAGACCG
1 GGTCAAACCG
1267840 GGTCAAACCG
1 GGTCAAACCG
1267850 GGTCAAACCG
1 GGTCAAACCG
1267860 GGTCA
1 GGTCA
1267865 GGTCAGACCG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.26, C:0.29, G:0.34, T:0.11
Consensus pattern (10 bp):
GGTCAAACCG
Found at i:1267852 original size:35 final size:35
Alignment explanation
Indices: 1267813--1267881 Score: 111
Period size: 35 Copynumber: 2.0 Consensus size: 35
1267803 CAACACTCAA
** *
1267813 CGGGTCAAGTCGGGTCAGGTCAGACCGGGTCAAAC
1 CGGGTCAAACCGGGTCAGGTCAGACCGAGTCAAAC
1267848 CGGGTCAAACCGGGTCAGGTCAGACCGAGTCAAA
1 CGGGTCAAACCGGGTCAGGTCAGACCGAGTCAAA
1267882 TCGATTTTCA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.26, C:0.26, G:0.35, T:0.13
Consensus pattern (35 bp):
CGGGTCAAACCGGGTCAGGTCAGACCGAGTCAAAC
Found at i:1274868 original size:15 final size:14
Alignment explanation
Indices: 1274833--1274874 Score: 59
Period size: 13 Copynumber: 3.0 Consensus size: 14
1274823 AGTCAAGTCG
1274833 GGTCAGGTCGGG-C
1 GGTCAGGTCGGGTC
*
1274846 GGTCAGGTCGGGTT
1 GGTCAGGTCGGGTC
1274860 GGATCAGGTCGGGTC
1 GG-TCAGGTCGGGTC
1274875 AAATCGGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 12 0.48
14 2 0.08
15 11 0.44
ACGTcount: A:0.10, C:0.19, G:0.50, T:0.21
Consensus pattern (14 bp):
GGTCAGGTCGGGTC
Found at i:1275911 original size:2 final size:2
Alignment explanation
Indices: 1275904--1275975 Score: 94
Period size: 2 Copynumber: 36.0 Consensus size: 2
1275894 ATTTTGAGTT
1275904 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
1275945 TA -A GTGG TT TA TA TA TA TA TA TA TA TA TA TA
1 TA TA -T-A TA TA TA TA TA TA TA TA TA TA TA TA
1275976 AGTGGTTTTT
Statistics
Matches: 63, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
1 2 0.03
2 60 0.95
3 1 0.02
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1276997 original size:31 final size:31
Alignment explanation
Indices: 1276962--1277066 Score: 183
Period size: 31 Copynumber: 3.4 Consensus size: 31
1276952 AAAACATAAT
* *
1276962 TTTTGGTCACTTATGTTATTGTTTTATTAAG
1 TTTTGGTCACTTACGGTATTGTTTTATTAAG
1276993 TTTTGGTCACTTACGGTATTGTTTTATTAAG
1 TTTTGGTCACTTACGGTATTGTTTTATTAAG
1277024 TTTTGGTCACTTACGGTATTGTTTTATTAAG
1 TTTTGGTCACTTACGGTATTGTTTTATTAAG
*
1277055 TTTTGATCACTT
1 TTTTGGTCACTT
1277067 GGACGTTGAA
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 71 1.00
ACGTcount: A:0.19, C:0.10, G:0.17, T:0.54
Consensus pattern (31 bp):
TTTTGGTCACTTACGGTATTGTTTTATTAAG
Found at i:1286323 original size:3 final size:3
Alignment explanation
Indices: 1286315--1286372 Score: 73
Period size: 3 Copynumber: 19.0 Consensus size: 3
1286305 TGTCCCGGTT
*
1286315 TTA TTA TTA TTA TTA TTA -TA TTA TTTA TTA TATA TTT TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA T-TA TTA TTA TTA TTA
*
1286361 ATA TTA TTA TTA
1 TTA TTA TTA TTA
1286373 CAACCAGGCC
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
2 2 0.04
3 40 0.83
4 6 0.12
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:1287711 original size:20 final size:21
Alignment explanation
Indices: 1287665--1287711 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
1287655 CTGCTTTTAA
*
1287665 ATATATCGTTCTAATTGTATT
1 ATATATTGTTCTAATTGTATT
* *
1287686 -TTTATTGTTTTAATTGT-TT
1 ATATATTGTTCTAATTGTATT
1287705 ATATATT
1 ATATATT
1287712 TAAATATTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 3
0.75 0.14 0.11
Matches are distributed among these distances:
19 2 0.10
20 19 0.90
ACGTcount: A:0.26, C:0.04, G:0.09, T:0.62
Consensus pattern (21 bp):
ATATATTGTTCTAATTGTATT
Found at i:1287781 original size:26 final size:23
Alignment explanation
Indices: 1287752--1287804 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 23
1287742 AAATATATAT
*
1287752 AATAAATAATAATTTATATTTTTTTC
1 AATAAAT--TAATTTA-ATATTTTTC
*
1287778 AATAAATTATTTTAATATTTTTC
1 AATAAATTAATTTAATATTTTTC
1287801 AATA
1 AATA
1287805 TCGAAGAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 12 0.48
24 6 0.24
26 7 0.28
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (23 bp):
AATAAATTAATTTAATATTTTTC
Found at i:1291771 original size:15 final size:15
Alignment explanation
Indices: 1291751--1291782 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
1291741 TCAATACCTT
1291751 TTTTGCATACATACA
1 TTTTGCATACATACA
*
1291766 TTTTGCATACATTCA
1 TTTTGCATACATACA
1291781 TT
1 TT
1291783 ATTCATTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.19, G:0.06, T:0.47
Consensus pattern (15 bp):
TTTTGCATACATACA
Found at i:1295676 original size:12 final size:12
Alignment explanation
Indices: 1295656--1295686 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
1295646 TAATAGCATG
*
1295656 TTTATTCCTAAA
1 TTTAATCCTAAA
1295668 TTTAATCCTAAA
1 TTTAATCCTAAA
1295680 TTTAATC
1 TTTAATC
1295687 AAGAGATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.35, C:0.16, G:0.00, T:0.48
Consensus pattern (12 bp):
TTTAATCCTAAA
Found at i:1299136 original size:13 final size:11
Alignment explanation
Indices: 1299111--1299181 Score: 52
Period size: 11 Copynumber: 5.8 Consensus size: 11
1299101 ATTATGCTTG
1299111 AAGAAAAAAAA
1 AAGAAAAAAAA
* *
1299122 GAGAAAAAGAA
1 AAGAAAAAAAA
1299133 AAGAAAAATTAAA
1 AAGAAAAA--AAA
1299146 AAGAACGGAGAAAAA
1 AAGAA---A-AAAAA
*
1299161 AAGAGAAAAAAG
1 AAGA-AAAAAAA
1299173 AAGAAAAAA
1 AAGAAAAAA
1299182 GGGGGGTCAA
Statistics
Matches: 48, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
11 21 0.44
12 8 0.17
13 8 0.17
15 7 0.15
16 2 0.04
17 2 0.04
ACGTcount: A:0.77, C:0.01, G:0.18, T:0.03
Consensus pattern (11 bp):
AAGAAAAAAAA
Found at i:1300682 original size:83 final size:83
Alignment explanation
Indices: 1300543--1300858 Score: 497
Period size: 83 Copynumber: 3.7 Consensus size: 83
1300533 GAACAAATGC
1300543 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
1300608 CATTGAATTTGAAAGATG
66 CATTGAATTTGAAAGATG
* *
1300626 AATGTGCTCATAACATCTTCTGGAAGTGTTATTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
1300691 CATTGAATTTGAAAGATG
66 CATTGAATTTGAAAGATG
1300709 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT-G---G-----T
*
1300774 AAAAACCAATCATTAAATTTGAAAGATG
57 -AAAACCAATCATTGAATTTGAAAGATG
* *
1300802 AATGTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTA
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTA
1300859 TGAAACCACA
Statistics
Matches: 216, Mismatches: 7, Indels: 20
0.89 0.03 0.08
Matches are distributed among these distances:
83 133 0.62
84 2 0.01
87 1 0.00
89 1 0.00
92 2 0.01
93 77 0.36
ACGTcount: A:0.28, C:0.13, G:0.21, T:0.38
Consensus pattern (83 bp):
AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
CATTGAATTTGAAAGATG
Found at i:1300841 original size:93 final size:92
Alignment explanation
Indices: 1300543--1300908 Score: 473
Period size: 83 Copynumber: 4.1 Consensus size: 92
1300533 GAACAAATGC
1300543 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT-G---G----T-
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCTA
*
1300599 AAAACCAATCATTGAATTTGAAAGATG
66 AAAACCAATCATTAAATTTGAAAGATG
* *
1300626 AATGTGCTCATAACATCTTCTGGAAGTGTTATTTGAGTTATCTGATCTGGTTT-G---G----T-
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCTA
*
1300682 AAAACCAATCATTGAATTTGAAAGATG
66 AAAACCAATCATTAAATTTGAAAGATG
1300709 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAA-CCT
1300774 AAAAACCAATCATTAAATTTGAAAGATG
65 AAAAACCAATCATTAAATTTGAAAGATG
* *
1300802 AATGTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACC-
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATG-AACCT
* * *
1300866 ACATAACCAATCATTAGATATTGAAAAATG
65 A-AAAACCAATCATTAAAT-TTGAAAGATG
*
1300896 AATTTGCTCATAG
1 AATGTGCTCATAG
1300909 TAAAAATAAG
Statistics
Matches: 257, Mismatches: 13, Indels: 15
0.90 0.05 0.05
Matches are distributed among these distances:
83 132 0.51
84 1 0.00
87 1 0.00
92 2 0.01
93 100 0.39
94 21 0.08
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.37
Consensus pattern (92 bp):
AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCTA
AAAACCAATCATTAAATTTGAAAGATG
Found at i:1302036 original size:113 final size:113
Alignment explanation
Indices: 1301796--1302474 Score: 792
Period size: 113 Copynumber: 6.0 Consensus size: 113
1301786 TAGCAAAGAT
* * * *
1301796 TCAAATCCATCAATTGATGGATTAACATTGCCAG-GTAGAGTTCATAATGAGAAGAACTCATCAT
1 TCAAATCCATCAATTGATGGATCAGCTTTGCCAGAG-AAAGTTCATAATGAGAAGAA--C-TCAT
* * **
1301860 CTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTAT
62 CTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
* * * * *
1301912 TTAAATTCATCAATTGATGGATTAGCTTTGCCAGGGAAAGTTCATAATGAGAAGAATTCATCTGA
1 TCAAATCCATCAATTGATGGATCAGCTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
* * *
1301977 AGAAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAATCTTTTGC
66 AGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
* * * *
1302025 TCAAATCCATCATTTGATGGATCAGCTTTTCCAAAAAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCAATTGATGGATCAGCTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
* * * *
1302090 AGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACTTTTTGA
66 AGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
** * * * ** *
1302138 TTGAATTCATCAGA--GATGGATCAACATTGCCAG-GTTGAGTTCATAATGGGAAGAACTCATCT
1 TCAAATCCATCA-ATTGATGGATCAGCTTTGCCAGAG-AAAGTTCATAATGAGAAGAACTCATCT
* * **
1302200 GAAGAAAGAAGAATAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTAT
64 GAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
** * * * * * *
1302250 TTGAATTCATCATTTGATGGATCAGTTTTTCAAGAG-AAGTTCATAATGAGAAGAACTCATTTGA
1 TCAAATCCATCAATTGATGGATCAGCTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
* * *
1302314 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
* * *
1302362 TCAAATCCATCACTTGATGGATCAGATTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCAATTGATGGATCAGCTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
* * *
1302427 AGAAAGAAGAAGAAGTTAATAATGAGAAGAGCTTGTTCGACCTTTTGC
66 AGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
1302475 AGGACTCTAT
Statistics
Matches: 483, Mismatches: 73, Indels: 17
0.84 0.13 0.03
Matches are distributed among these distances:
112 192 0.40
113 240 0.50
114 1 0.00
116 49 0.10
117 1 0.00
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.29
Consensus pattern (113 bp):
TCAAATCCATCAATTGATGGATCAGCTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
AGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
Found at i:1302361 original size:337 final size:340
Alignment explanation
Indices: 1301811--1302473 Score: 1044
Period size: 337 Copynumber: 2.0 Consensus size: 340
1301801 TCCATCAATT
* *
1301811 GATGGATTAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCATCTGAAGAAGGAAGAAG
1 GATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAAC-CATCATCTGAAGAAAGAAGAAG
* *
1301876 AAGTTCATAATGAGAAGAATTTGTTCAACCTTTTATTTAAATTCATCAATTGATGGATTAGCTTT
65 AAGTTCATAATGAGAAGAACTTGTTCAACCTTTTATTTAAATTCATCAATTGATGGATCAGCTTT
* * *
1301941 GCCAGGGAAAGTTCATAATGAGAAGAATTCATCTGAAGAAAGAAGAAGAAATTCATAATGAGAAG
130 GCAAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAATTCATAATGAGAAG
* * *
1302006 AATTTGTTCAATCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAAAAAAAGTTCATA
195 AATTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAGATTTTCCAAAAAAAGTTCATA
* * *
1302071 ATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACTTTTT
260 ATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTAATAATAAGAAGAACTTGTTCAACCTTTT
1302136 GATTGAATTCATCAGA
325 GATTGAATTCATCAGA
* * *
1302152 GATGGATCAACATTGCCAGGTTGAGTTCATAATGGGAAGAA-C-TCATCTGAAGAAAGAAGAATA
1 GATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACCATCATCTGAAGAAAGAAGAAGA
* * * * *
1302215 AGTTCATAATGAGAAGAACTTGTTCAACTTTTTATTTGAATTCATCATTTGATGGATCAGTTTTT
66 AGTTCATAATGAGAAGAACTTGTTCAACCTTTTATTTAAATTCATCAATTGATGGATCAGCTTTG
* *
1302280 CAAGAG-AAGTTCATAATGAGAAGAACTCATTTGAAGAAGGAAGAAGAAATTCATAATGAGAAGA
131 CAAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAATTCATAATGAGAAGA
* *
1302344 ATTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAGATTTTCCAGAGAAAGTTCATAA
196 ATTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAGATTTTCCAAAAAAAGTTCATAA
* * *
1302409 TGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTAATAATGAGAAGAGCTTGTTCGACCTTTTG
261 TGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTAATAATAAGAAGAACTTGTTCAACCTTTTG
1302474 CAGGACTCTA
Statistics
Matches: 294, Mismatches: 28, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
337 174 0.59
338 81 0.28
339 1 0.00
341 38 0.13
ACGTcount: A:0.39, C:0.12, G:0.20, T:0.29
Consensus pattern (340 bp):
GATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACCATCATCTGAAGAAAGAAGAAGA
AGTTCATAATGAGAAGAACTTGTTCAACCTTTTATTTAAATTCATCAATTGATGGATCAGCTTTG
CAAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAATTCATAATGAGAAGA
ATTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAGATTTTCCAAAAAAAGTTCATAA
TGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTAATAATAAGAAGAACTTGTTCAACCTTTTG
ATTGAATTCATCAGA
Found at i:1302531 original size:124 final size:121
Alignment explanation
Indices: 1302392--1302681 Score: 333
Period size: 120 Copynumber: 2.4 Consensus size: 121
1302382 ATCAGATTTT
* *
1302392 CCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTAATAATGAGAAGA
1 CCAGAGGAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTAACAATGAGAAGA
* * * **
1302457 GCTTGTTC-GACCTTTTGCAGGACTCTATCACAGAAAGAGATATATCATCATCAGCATTT
66 GCTTGTTCAG-CCTTTTGCAGAACTCTATCACAGAAAGAGATAGAT--T-AGCAGCATCC
* *
1302516 CCAGAAGG-AGTTCATAATGAGAAGAACTCAT-T--TG-AAGAAGAAGAAGTTCACAATGAGAAG
1 CCAG-AGGAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTAACAATGAGAAG
* * * * *
1302576 AGTTTGTTCAGCCTTTTGCATAATTCTATCACAGAAGGAGATAGATTAGCATCATCC
65 AGCTTGTTCAGCCTTTTGCAGAACTCTATCACAGAAAGAGATAGATTAGCAGCATCC
* *
1302633 CCAGTGGAAAGTTCATAATAAGAAGAACTCATCTGAAGAAAG-AGAAGAA
1 CCAGAGG-AAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAA
1302682 TTTATTCAAC
Statistics
Matches: 141, Mismatches: 17, Indels: 19
0.80 0.10 0.11
Matches are distributed among these distances:
116 2 0.01
117 10 0.07
118 23 0.16
119 1 0.01
120 62 0.44
121 10 0.07
122 3 0.02
123 1 0.01
124 27 0.19
125 2 0.01
ACGTcount: A:0.41, C:0.15, G:0.21, T:0.23
Consensus pattern (121 bp):
CCAGAGGAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTAACAATGAGAAGA
GCTTGTTCAGCCTTTTGCAGAACTCTATCACAGAAAGAGATAGATTAGCAGCATCC
Found at i:1302548 original size:33 final size:35
Alignment explanation
Indices: 1302511--1302576 Score: 82
Period size: 36 Copynumber: 1.9 Consensus size: 35
1302501 TCATCATCAG
* *
1302511 CATTTCCAGAAG-G-AGTTCATAATGAGAAGAACT
1 CATTTCAAGAAGAGAAGTTCACAATGAGAAGAACT
*
1302544 CATTTGAAGAAGAAGAAGTTCACAATGAGAAGA
1 CATTTCAAGAAG-AGAAGTTCACAATGAGAAGA
1302577 GTTTGTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
33 10 0.37
35 1 0.04
36 16 0.59
ACGTcount: A:0.44, C:0.12, G:0.23, T:0.21
Consensus pattern (35 bp):
CATTTCAAGAAGAGAAGTTCACAATGAGAAGAACT
Found at i:1302827 original size:3 final size:3
Alignment explanation
Indices: 1302819--1302876 Score: 73
Period size: 3 Copynumber: 19.0 Consensus size: 3
1302809 TGTCCCGGTT
*
1302819 TTA TTA TTA TTA TTA TTA -TA TTA TTTA TTA TATA TTT TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA T-TA TTA TTA TTA TTA
*
1302865 ATA TTA TTA TTA
1 TTA TTA TTA TTA
1302877 CAACCAGGCC
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
2 2 0.04
3 40 0.83
4 6 0.12
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:1304293 original size:26 final size:23
Alignment explanation
Indices: 1304264--1304316 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 23
1304254 AAATATATAT
*
1304264 AATAAATAATAATTTATATTTTTTTC
1 AATAAAT--TAATTTA-ATATTTTTC
*
1304290 AATAAATTATTTTAATATTTTTC
1 AATAAATTAATTTAATATTTTTC
1304313 AATA
1 AATA
1304317 TCGAAGAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 12 0.48
24 6 0.24
26 7 0.28
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (23 bp):
AATAAATTAATTTAATATTTTTC
Found at i:1307404 original size:3 final size:3
Alignment explanation
Indices: 1307396--1307514 Score: 220
Period size: 3 Copynumber: 39.7 Consensus size: 3
1307386 TTTTTACCCA
*
1307396 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
1307444 TAT TAT TAT TAT TAT CAT 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
1307492 TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TA
1307515 AATATATTAA
Statistics
Matches: 112, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 112 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:1307557 original size:21 final size:21
Alignment explanation
Indices: 1307513--1307557 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
1307503 TTATTATTAT
* *
1307513 TAAATATATTAAATACATATA
1 TAAATATATTAAAAAAATATA
1307534 TAAATATTATTAAAAAAATA-A
1 TAAATA-TATTAAAAAAATATA
1307555 TAA
1 TAA
1307558 TTACAGGCCC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (21 bp):
TAAATATATTAAAAAAATATA
Found at i:1308055 original size:42 final size:43
Alignment explanation
Indices: 1307974--1308055 Score: 96
Period size: 42 Copynumber: 1.9 Consensus size: 43
1307964 ACCTGAAAAA
** *
1307974 AAAAAAAGAAAAGAGACAAAAAACAGGAGAGACACAGAGACAG
1 AAAAAAAGAAAAGAGACAAAAAACAACAGAAACACAGAGACAG
* *
1308017 AAAAAAAGGAAAGA-A-AAAGAAACAACAGAAACAGAGAGA
1 AAAAAAAGAAAAGAGACAAA-AAACAACAGAAACACAGAGA
1308056 GATACAAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
41 3 0.09
42 17 0.52
43 13 0.39
ACGTcount: A:0.68, C:0.10, G:0.22, T:0.00
Consensus pattern (43 bp):
AAAAAAAGAAAAGAGACAAAAAACAACAGAAACACAGAGACAG
Found at i:1308988 original size:18 final size:18
Alignment explanation
Indices: 1308952--1308990 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
1308942 GTAGTATTTG
***
1308952 TATTTTTATATTGTTAAA
1 TATTTTTATATTCAGAAA
1308970 TATTTTTATATTCAGAAA
1 TATTTTTATATTCAGAAA
1308988 TAT
1 TAT
1308991 ATAATAAATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.56
Consensus pattern (18 bp):
TATTTTTATATTCAGAAA
Found at i:1320392 original size:28 final size:31
Alignment explanation
Indices: 1320356--1320427 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 31
1320346 TATTATGCTT
*
1320356 AAGAGAAAAGAAAGAAA-ATAGAAAAAA-ATAG
1 AAGA-AAAAGAAAGAAAGAAAGAAAAAAGA-AG
1320387 -A-AAAAAGAAA-AAAGAAAGAAAAAAGAAG
1 AAGAAAAAGAAAGAAAGAAAGAAAAAAGAAG
1320415 AAGAAAAAGAAAG
1 AAGAAAAAGAAAG
1320428 GGGGGGTCAA
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
27 3 0.09
28 19 0.54
29 3 0.09
30 10 0.29
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (31 bp):
AAGAAAAAGAAAGAAAGAAAGAAAAAAGAAG
Found at i:1320402 original size:24 final size:24
Alignment explanation
Indices: 1320366--1320427 Score: 74
Period size: 24 Copynumber: 2.6 Consensus size: 24
1320356 AAGAGAAAAG
* *
1320366 AAAGAAAATAGAAA-AAAATAGAAA
1 AAAGAAAAAAGAAAGAAAAAAG-AA
1320390 AAAGAAAAAAGAAAGAAAAAAGAA
1 AAAGAAAAAAGAAAGAAAAAAGAA
*
1320414 GAAG-AAAAAGAAAG
1 AAAGAAAAAAGAAAG
1320428 GGGGGGTCAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
23 10 0.29
24 18 0.53
25 6 0.18
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (24 bp):
AAAGAAAAAAGAAAGAAAAAAGAA
Found at i:1320408 original size:10 final size:9
Alignment explanation
Indices: 1320361--1320426 Score: 62
Period size: 10 Copynumber: 6.9 Consensus size: 9
1320351 TGCTTAAGAG
1320361 AAAAGAAAGA
1 AAAAGAAA-A
1320371 AAATAGAAAA
1 AAA-AGAAAA
1320381 AAATAGAAAA
1 AAA-AGAAAA
1320391 AAGAA-AAAA
1 AA-AAGAAAA
*
1320400 GAAAGAAAA
1 AAAAGAAAA
*
1320409 AAGAAGAAGA
1 AA-AAGAAAA
1320419 AAAAGAAA
1 AAAAGAAA
1320427 GGGGGGGTCA
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
8 2 0.04
9 15 0.31
10 25 0.52
11 6 0.12
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (9 bp):
AAAAGAAAA
Found at i:1320418 original size:17 final size:16
Alignment explanation
Indices: 1320359--1320420 Score: 70
Period size: 17 Copynumber: 3.6 Consensus size: 16
1320349 TATGCTTAAG
*
1320359 AGAAAAGAAAGAAAAT
1 AGAAAAGAAAGAAAAA
*
1320375 AGAAAAAAATAGAAAAA
1 AGAAAAGAA-AGAAAAA
1320392 AGAAAAAAGAAAGAAAAA
1 AG--AAAAGAAAGAAAAA
1320410 AGAAGAAGAAA
1 AGAA-AAGAAA
1320421 AAGAAAGGGG
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
16 10 0.26
17 14 0.36
18 9 0.23
19 6 0.15
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (16 bp):
AGAAAAGAAAGAAAAA
Found at i:1321707 original size:84 final size:84
Alignment explanation
Indices: 1321566--1322239 Score: 1260
Period size: 84 Copynumber: 8.0 Consensus size: 84
1321556 GAACAAATAT
*
1321566 AATGTGCTCAATAGCATTTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAA
1 AATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAA
1321631 TCATTGAATTTAGAAGATG
66 TCATTGAATTTAGAAGATG
* *
1321650 AATGTGCTCAATAGCATTTTTTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAA
1 AATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAA
1321715 TCATTGAATTTAGAAGATG
66 TCATTGAATTTAGAAGATG
1321734 AATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAA
1 AATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAA
1321799 TCATTGAATTTAGAAGATG
66 TCATTGAATTTAGAAGATG
*
1321818 AATGTGCTCAATAGCATTTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAA
1 AATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAA
1321883 TCATTGAATTTAGAAGATG
66 TCATTGAATTTAGAAGATG
1321902 AATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAA
1 AATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAA
1321967 TCATTGAATTTAGAAGATG
66 TCATTGAATTTAGAAGATG
*
1321986 AATGTGCTCAATAGCATCTTTTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAA
1 AATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAA
1322051 TCATTGAATTTAGAAGATG
66 TCATTGAATTTAGAAGATG
1322070 AATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAA
1 AATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAA
1322135 TCATTGAATTTAGAAGATG
66 TCATTGAATTTAGAAGATG
*
1322154 AATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGGTTGGACAGAACCAA
1 AATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAA
* *
1322219 TCGTTGGAA-TTAAAAGATG
66 TCATT-GAATTTAGAAGATG
1322238 AA
1 AA
1322240 CTGCATGATC
Statistics
Matches: 579, Mismatches: 10, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
84 576 0.99
85 3 0.01
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.35
Consensus pattern (84 bp):
AATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAA
TCATTGAATTTAGAAGATG
Found at i:1323134 original size:113 final size:113
Alignment explanation
Indices: 1322951--1323602 Score: 1135
Period size: 113 Copynumber: 5.8 Consensus size: 113
1322941 TTGAAAGATT
1322951 AGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
1 AGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
** *
1323016 GAGAAGAATTTGTTCAACCTTTTACCTGAATCCATCATTTGATGGATC
66 GAGAAGAATTTGTTCAACCTTTTATATGAATCCATCATTTAATGGATC
*
1323064 AGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATTTGAAGAAGGAAGAAGAAGTTCATAAT
1 AGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
1323129 GAGAAGAATTTGTTCAACCTTTTATATGAATCCATCATTTAATGGATC
66 GAGAAGAATTTGTTCAACCTTTTATATGAATCCATCATTTAATGGATC
1323177 AGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
1 AGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
1323242 GAGAAGAATTTGTTCAACCTTTTATATGAATCCATCATTTAATGGATC
66 GAGAAGAATTTGTTCAACCTTTTATATGAATCCATCATTTAATGGATC
*
1323290 AGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAAT
1 AGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
1323355 GAGAAGAATTTGTTCAACCTTTTATATGAATCCATCATTTAATGGATC
66 GAGAAGAATTTGTTCAACCTTTTATATGAATCCATCATTTAATGGATC
*
1323403 AGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAATGAAGAAGAAGTTCATAAT
1 AGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
** * * * *
1323468 GAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAATTGATGGATT
66 GAGAAGAATTTGTTCAACCTTTTATATGAATCCATCATTTAATGGATC
* * *
1323516 ATCTTTTCCGGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAAT
1 AGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
* * *
1323580 AAGAAGAACTTGTTCAACTTTTT
66 GAGAAGAATTTGTTCAACCTTTT
1323603 GCATAATTCT
Statistics
Matches: 518, Mismatches: 21, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
112 69 0.13
113 449 0.87
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.29
Consensus pattern (113 bp):
AGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
GAGAAGAATTTGTTCAACCTTTTATATGAATCCATCATTTAATGGATC
Found at i:1323934 original size:3 final size:3
Alignment explanation
Indices: 1323926--1324043 Score: 209
Period size: 3 Copynumber: 39.3 Consensus size: 3
1323916 TACCCATATC
1323926 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
1323974 ATC ATT ATT ATT ATT ATC ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
1324022 ATC ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT A
1324044 AATATATTAA
Statistics
Matches: 109, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 109 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:1324086 original size:21 final size:21
Alignment explanation
Indices: 1324042--1324086 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
1324032 TTATTATTAT
* *
1324042 TAAATATATTAAATACATATA
1 TAAATATATTAAAAAAATATA
1324063 TAAATATTATTAAAAAAATA-A
1 TAAATA-TATTAAAAAAATATA
1324084 TAA
1 TAA
1324087 TTACAGGCCC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (21 bp):
TAAATATATTAAAAAAATATA
Found at i:1324584 original size:42 final size:43
Alignment explanation
Indices: 1324503--1324584 Score: 96
Period size: 42 Copynumber: 1.9 Consensus size: 43
1324493 ACCTGAAAAA
** *
1324503 AAAAAAAGAAAAGAGACAAAAAACAGGAGAGACACAGAGACAG
1 AAAAAAAGAAAAGAGACAAAAAACAACAGAAACACAGAGACAG
* *
1324546 AAAAAAAGGAAAGA-A-AAAGAAACAACAGAAACAGAGAGA
1 AAAAAAAGAAAAGAGACAAA-AAACAACAGAAACACAGAGA
1324585 GATACAAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
41 3 0.09
42 17 0.52
43 13 0.39
ACGTcount: A:0.68, C:0.10, G:0.22, T:0.00
Consensus pattern (43 bp):
AAAAAAAGAAAAGAGACAAAAAACAACAGAAACACAGAGACAG
Found at i:1325516 original size:18 final size:18
Alignment explanation
Indices: 1325480--1325518 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
1325470 GTAGTATTTG
***
1325480 TATTTTTATATTGTTAAA
1 TATTTTTATATTCAGAAA
1325498 TATTTTTATATTCAGAAA
1 TATTTTTATATTCAGAAA
1325516 TAT
1 TAT
1325519 ATAACAAATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.56
Consensus pattern (18 bp):
TATTTTTATATTCAGAAA
Found at i:1328822 original size:18 final size:18
Alignment explanation
Indices: 1328788--1328838 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 18
1328778 TATCGAAAAA
*
1328788 TAAATAAATATTAATATT
1 TAAACAAATATTAATATT
*
1328806 TAAACAAATA-T-ATATA
1 TAAACAAATATTAATATT
* *
1328822 TAAACATATATTTATAT
1 TAAACAAATATTAATAT
1328839 GACTAATATG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
16 13 0.46
17 2 0.07
18 13 0.46
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (18 bp):
TAAACAAATATTAATATT
Found at i:1330172 original size:3 final size:3
Alignment explanation
Indices: 1330166--1330261 Score: 129
Period size: 3 Copynumber: 31.0 Consensus size: 3
1330156 TTATTTTTTA
1330166 AAT AAT AAT AAT AAT AAT AAT AAT ATAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT
** * *
1330212 AAT AATT TTT AAT AAT AAT AAT ACT AAT ATTT AAT AAT AAT AAT AAT
1 AAT AA-T AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT
1330259 AAT
1 AAT
1330262 TTTAAATAAA
Statistics
Matches: 82, Mismatches: 8, Indels: 6
0.85 0.08 0.06
Matches are distributed among these distances:
3 76 0.93
4 6 0.07
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (3 bp):
AAT
Found at i:1330195 original size:25 final size:25
Alignment explanation
Indices: 1330167--1330261 Score: 138
Period size: 25 Copynumber: 3.8 Consensus size: 25
1330157 TATTTTTTAA
1330167 ATAATAATAATAATAATAATAATAT
1 ATAATAATAATAATAATAATAATAT
1330192 ATAATAATAATAATAATAATAATA-
1 ATAATAATAATAATAATAATAATAT
** *
1330216 ATTTTTAATAATAATAATACTAATAT
1 A-TAATAATAATAATAATAATAATAT
*
1330242 TTAATAATAATAATAATAAT
1 ATAATAATAATAATAATAAT
1330262 TTTAAATAAA
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
24 1 0.02
25 60 0.98
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (25 bp):
ATAATAATAATAATAATAATAATAT
Found at i:1330270 original size:22 final size:21
Alignment explanation
Indices: 1330166--1330266 Score: 130
Period size: 22 Copynumber: 4.7 Consensus size: 21
1330156 TTATTTTTTA
**
1330166 AATAATAATAATAATAATAAT
1 AATAATAATTTTAATAATAAT
**
1330187 AATATATAATAATAATAATAAT
1 AATA-ATAATTTTAATAATAAT
1330209 AATAATAATTTTTAATAATAAT
1 AATAATAA-TTTTAATAATAAT
*
1330231 AATACTAATATTTAATAATAAT
1 AATAATAAT-TTTAATAATAAT
1330253 AATAATAATTTTAA
1 AATAATAATTTTAA
1330267 ATAAATAAAA
Statistics
Matches: 73, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
21 14 0.19
22 59 0.81
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (21 bp):
AATAATAATTTTAATAATAAT
Found at i:1330443 original size:20 final size:19
Alignment explanation
Indices: 1330415--1330482 Score: 100
Period size: 20 Copynumber: 3.4 Consensus size: 19
1330405 ATTCTACCCA
*
1330415 GAGGCCTTAAGAATGGACCG
1 GAGGTCTTAAGAATGG-CCG
1330435 GAGGTCTTAAGAATGGCCCG
1 GAGGTCTTAAGAATGG-CCG
1330455 GAGGTCTTAAGAATGGCTCG
1 GAGGTCTTAAGAATGGC-CG
1330475 GAGGTCTT
1 GAGGTCTT
1330483 GATAACATCA
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
19 1 0.02
20 44 0.98
ACGTcount: A:0.25, C:0.18, G:0.35, T:0.22
Consensus pattern (19 bp):
GAGGTCTTAAGAATGGCCG
Found at i:1330630 original size:45 final size:45
Alignment explanation
Indices: 1330556--1330742 Score: 268
Period size: 45 Copynumber: 4.2 Consensus size: 45
1330546 TCGAAGTCTT
*
1330556 TTTGAAAACATCATGCACTAAAGGGCTTACAGATGACCCGAAAGC
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAAGC
* *
1330601 TTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCC-AAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAA-GC
* * * * *
1330646 TTTGAGAACATCATGCACTGAAGGTCTTATAGATGACCCGAAGGG
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAAGC
* *
1330691 TTTGAAAACATCATGCACTGAAGGGCCTACAGATGACCCGAAGGC
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAAGC
1330736 TTTGAAA
1 TTTGAAA
1330743 CTATCAAAAA
Statistics
Matches: 128, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
44 3 0.02
45 123 0.96
46 2 0.02
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.22
Consensus pattern (45 bp):
TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAAGC
Found at i:1330822 original size:45 final size:45
Alignment explanation
Indices: 1330766--1332511 Score: 2765
Period size: 45 Copynumber: 38.8 Consensus size: 45
1330756 CCTGAAGGCT
* * * *
1330766 TTTTGAAAACATCCTGCACT-ATAGGTCTTACGGATGACCCGAAGA
1 TTTTGAAAACATCATGCACTGA-AGGGCTTACAGATGACCCGAAGG
*
1330811 TTTTCAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
*
1330856 CTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
1330901 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
* * *
1330946 TTTTAAAAACAACATGCACTGAAGGGCTTACAGATGACCTGAAGG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
1330991 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
* *
1331036 TTTTGGAAACATCATGCACTGAAGGGCTTATAGATGACCCGAAGG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
* * * *
1331081 TTTTGAAAACATCATTCACTGAAGGTCTTACAGATGATCCAAAGG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
*
1331126 TTTTGAAAACATCATGCACTGAAGGGCTTATAGATGACCCGAAGG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
* * *
1331171 TTTTGAAAACATCTTGCACTGAAGGTCTTACAGATGACCCAAAGG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
* *
1331216 TTTTGAAAACATCATGCACTGAAAGGCTTACATATGACCCGAAGG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
* *
1331261 ATTTGAAAACATCATGCACTGAAGGGCTTACAGATGATCCGAAGG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
* *
1331306 TTTTGAAAACATTATGCACTGAAAGGCTTACAGATGACCCGAAGG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
* *
1331351 TTTTGAAAACGTCATGCACTGAAGGGCTTACAGATGACCCAAAGG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
** * * *
1331396 TTTTGAAAACGGCATGCACTGAAGGTCTTATAGATGACCTGAAGG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
*
1331441 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGA
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
****
1331486 TTTTGAAAACATCATGCACTGAAGGGCTTATTTTTGACCCGAAGG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
* *
1331531 TTTTAAAAACATCATGCACTGAAGGGATTACAGATGACCCGAAGG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
**
1331576 TTTTGAAAACATCATGCACTGAAGGGCTTATTGATGACCCGAAGG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
*
1331621 TTTTGAAAACATCATGCACTGAAGGGTTTACAGATGACCCGAAGG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
*
1331666 TTTTGAAAACATCATACACTGAAGGGCTTACAGATGACCCGAAGG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
1331711 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
1331756 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
*
1331801 TTTTGAAAACATCATGCACTGAAGGGCTTATAGATGACCCGAAGG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
* * * *
1331846 TTTTGAAAACATCATTCACTGAAGGTCTTACAGATGATCCAAAGG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
*
1331891 TTTTGAAAACATCATGCACTGAAGGGCTTATAGATGACCCGAAGG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
* * *
1331936 TTTTGAAAACATCTTGCACTGAAGGTCTTACAGATGACCCAAAGG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
* *
1331981 TTTTGAAAACATCATGCACTGAAAGGCTTACATATGACCCGAAGG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
* **
1332026 ATTTGAAAACATCATGCACTGAAGGGCTTACAGATGATTCGAAGG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
* *
1332071 TTTTGAAAACATTATGCACTGAAAGGCTTACAGATGACCCGAAGG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
* *
1332116 TTTTGAAAACGTCATGCACTGAAGGGCTTACAGATGACCCAAAGG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
** * * *
1332161 TTTTGAAAACGGCATGCACTGAAGGTCTTATAGATGACCTGAAGG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
*
1332206 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGA
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
****
1332251 TTTTGAAAACATCATGCACTGAAGGGCTTATTTTTGACCCGAAGG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
* *
1332296 TTTTAAAAACATCATGCACTGAAGGGATTACAGATGACCCGAAGG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
**
1332341 TTTTGAAAACATCATGCACTGAAGGGCTTATTGATGACCCGAAGG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
*
1332386 TTTTAAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
* * *
1332431 TTTTGAAAACATCATACACTGAAGGGATTACAGATGATCCGAAGG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
1332476 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATG
1332512 TTGGAGATAG
Statistics
Matches: 1551, Mismatches: 149, Indels: 2
0.91 0.09 0.00
Matches are distributed among these distances:
45 1550 1.00
46 1 0.00
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.25
Consensus pattern (45 bp):
TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
Found at i:1330859 original size:121 final size:121
Alignment explanation
Indices: 1330645--1330863 Score: 350
Period size: 121 Copynumber: 1.8 Consensus size: 121
1330635 GACCCAAAGG
* * * *
1330645 TTTTGAGAACATCATGCACTGAAGGTCTTATAGATGACCCGAAGGGTTTGAAAACATCATGCACT
1 TTTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGAGTTTCAAAACATCATGCACT
1330710 GAAGGGCCTACAGATGACCCGAAGGCTTTGAAACTATCAAAAAGCTCCTGAAGGCT
66 GAAGGGCCTACAGATGACCCGAAGGCTTTGAAACTATCAAAAAGCTCCTGAAGGCT
* * *
1330766 TTTTGAAAACATCCTGCACT-ATAGGTCTTACGGATGACCCGAAGATTTTCAAAACATCATGCAC
1 TTTTGAAAACATCATGCACTGA-AGGTCTTACAGATGACCCGAAGAGTTTCAAAACATCATGCAC
*
1330830 TGAAGGGCTTACAGATGACCCGAAGGCTTTGAAA
65 TGAAGGGCCTACAGATGACCCGAAGGCTTTGAAA
1330864 ACATCATGCA
Statistics
Matches: 89, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
120 1 0.01
121 88 0.99
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (121 bp):
TTTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGAGTTTCAAAACATCATGCACT
GAAGGGCCTACAGATGACCCGAAGGCTTTGAAACTATCAAAAAGCTCCTGAAGGCT
Found at i:1333217 original size:22 final size:22
Alignment explanation
Indices: 1333161--1333218 Score: 98
Period size: 22 Copynumber: 2.6 Consensus size: 22
1333151 AATAAAGTTT
*
1333161 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAGAGAGAATCTA
1333183 TCATCTTTGAAGAGAGAATCTA
1 TCATCTTTGAAGAGAGAATCTA
*
1333205 TCATCTTTCAAGAG
1 TCATCTTTGAAGAG
1333219 TGTAGATATA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.33
Consensus pattern (22 bp):
TCATCTTTGAAGAGAGAATCTA
Done.