Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold312
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: 1822960
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 10 of 12
Found at i:1436302 original size:13 final size:13
Alignment explanation
Indices: 1436284--1436308 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1436274 CATAAAGTGT
1436284 TGTATCGATACAA
1 TGTATCGATACAA
1436297 TGTATCGATACA
1 TGTATCGATACA
1436309 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1436324 original size:32 final size:33
Alignment explanation
Indices: 1436264--1436329 Score: 116
Period size: 32 Copynumber: 2.0 Consensus size: 33
1436254 TTCAACGATT
1436264 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*
1436297 TGTATCGATACAT-AAGTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
1436329 T
1 T
1436330 TTAAGCTACT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 19 0.59
33 13 0.41
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:1441215 original size:47 final size:47
Alignment explanation
Indices: 1441161--1441256 Score: 176
Period size: 47 Copynumber: 2.0 Consensus size: 47
1441151 CTTGTTACTA
1441161 GGGTTTGACT-ATATCAACTTAAAATACTGACTACATAACAAATATCT
1 GGGTTTGACTAATATCAACTT-AAATACTGACTACATAACAAATATCT
1441208 GGGTTTGACTAATATCAACTTAAATACTGACTACATAACAAATATCT
1 GGGTTTGACTAATATCAACTTAAATACTGACTACATAACAAATATCT
1441255 GG
1 GG
1441257 TCAGGTGCAA
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
47 38 0.79
48 10 0.21
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.31
Consensus pattern (47 bp):
GGGTTTGACTAATATCAACTTAAATACTGACTACATAACAAATATCT
Found at i:1445809 original size:18 final size:19
Alignment explanation
Indices: 1445763--1445813 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 19
1445753 AACACACAAA
*
1445763 ATGTATTAATACAGTAAGC
1 ATGTATTGATACAGTAAGC
**
1445782 ATGATATTGATACCTTAAG-
1 ATG-TATTGATACAGTAAGC
1445801 ATGTATTGATACA
1 ATGTATTGATACA
1445814 AAGTTTTCAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 9 0.33
19 6 0.22
20 12 0.44
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (19 bp):
ATGTATTGATACAGTAAGC
Found at i:1449154 original size:19 final size:20
Alignment explanation
Indices: 1449127--1449167 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
1449117 TATGACCAAA
* *
1449127 TTTCTTAATTT-TTTTTTAT
1 TTTCCTAATTTATTTTTCAT
1449146 TTTCCTAATTTATTTTTCAT
1 TTTCCTAATTTATTTTTCAT
1449166 TT
1 TT
1449168 AAATCAGTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.17, C:0.10, G:0.00, T:0.73
Consensus pattern (20 bp):
TTTCCTAATTTATTTTTCAT
Found at i:1451462 original size:23 final size:25
Alignment explanation
Indices: 1451431--1451482 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 25
1451421 ACTTTCTATT
* *
1451431 AAAATGAAACAAGTT-AAAA-TTAA
1 AAAAAGAAACAAGTTCAAAAGGTAA
*
1451454 AAAAAGAAACAGGTTCAAAAGGTAA
1 AAAAAGAAACAAGTTCAAAAGGTAA
1451479 AAAA
1 AAAA
1451483 GACCTTGTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 13 0.54
24 4 0.17
25 7 0.29
ACGTcount: A:0.65, C:0.06, G:0.13, T:0.15
Consensus pattern (25 bp):
AAAAAGAAACAAGTTCAAAAGGTAA
Found at i:1453828 original size:32 final size:30
Alignment explanation
Indices: 1453792--1453854 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 30
1453782 TTCACCGATT
1453792 TGTATCGATACATAAAGTGTTGTA-CGATACAA
1 TGTATCGATACAT--AGT-TTGTATCGATACAA
1453824 TGTATCGATACATAGTTTGTATCGATACAA
1 TGTATCGATACATAGTTTGTATCGATACAA
1453854 T
1 T
1453855 TAAGCTACTC
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
29 5 0.17
30 12 0.40
32 13 0.43
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (30 bp):
TGTATCGATACATAGTTTGTATCGATACAA
Found at i:1453846 original size:17 final size:17
Alignment explanation
Indices: 1453790--1453852 Score: 64
Period size: 17 Copynumber: 3.8 Consensus size: 17
1453780 ATTTCACCGA
1453790 TTTGTATCGATACATAAAG
1 TTTGTATCGATACAT--AG
1453809 TGTTGTA-CGATACA-A-
1 T-TTGTATCGATACATAG
1453824 --TGTATCGATACATAG
1 TTTGTATCGATACATAG
1453839 TTTGTATCGATACA
1 TTTGTATCGATACA
1453853 ATTAAGCTAC
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
12 4 0.11
13 7 0.18
14 1 0.03
16 1 0.03
17 12 0.32
19 8 0.21
20 5 0.13
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (17 bp):
TTTGTATCGATACATAG
Found at i:1459033 original size:51 final size:51
Alignment explanation
Indices: 1458926--1459044 Score: 143
Period size: 51 Copynumber: 2.3 Consensus size: 51
1458916 TGAAAGTAAT
* * *
1458926 GGGGTTGGAGTATCCTCGATTATGAGAAACCAATATTTTAGAAATAAGGCA
1 GGGGTTGAAGTATCCCCGATTATGAGAAACCAATATTTTAGAAATAAAGCA
* * * *
1458977 GGGGTTTAAGTATCCCCGATTGTGAGAAATCAATATTTT-GAAAATAAAATCA
1 GGGGTTGAAGTATCCCCGATTATGAGAAACCAATATTTTAG-AAAT-AAAGCA
1459029 -GGGTTGAAGTATCCCC
1 GGGGTTGAAGTATCCCC
1459045 TCAGAAATAA
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
50 1 0.02
51 53 0.91
52 4 0.07
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.29
Consensus pattern (51 bp):
GGGGTTGAAGTATCCCCGATTATGAGAAACCAATATTTTAGAAATAAAGCA
Found at i:1459062 original size:28 final size:28
Alignment explanation
Indices: 1459029--1459099 Score: 92
Period size: 28 Copynumber: 2.5 Consensus size: 28
1459019 AATAAAATCA
1459029 GGGTTGAAGTATCCCCTCA-GAAATAACG
1 GGGTTGAAGTATCCCC-CATGAAATAACG
* *
1459057 GGGTTGGAGTATCCCCGATGAAATAACG
1 GGGTTGAAGTATCCCCCATGAAATAACG
1459085 GGGTT-AGAGTATCCC
1 GGGTTGA-AGTATCCC
1459100 TGATTGTGGA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
27 1 0.03
28 37 0.97
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.23
Consensus pattern (28 bp):
GGGTTGAAGTATCCCCCATGAAATAACG
Found at i:1459138 original size:79 final size:79
Alignment explanation
Indices: 1459055--1459308 Score: 334
Period size: 79 Copynumber: 3.2 Consensus size: 79
1459045 TCAGAAATAA
* * * *
1459055 CGGGGTTGGAGTATCCCCGAT-GAAATAACGGGGTTAGAGTATCCCTGATTGTGGAGAATTGGTG
1 CGGGGTTGGAGTATCCCC-ATAGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTG
1459119 TTTTAGAAATAAAAC
65 TTTTAGAAATAAAAC
* * * *
1459134 CGGGGTTTGAGTATCCCC-TCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATG
1 CGGGGTTGGAGTATCCCCATAG-AAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTG
1459198 TTTTAGAAATAAAAC
65 TTTTAGAAATAAAAC
* * * *
1459213 CGTGGTTAGAGTATCCCCTTAGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCGGTGT
1 CGGGGTTGGAGTATCCCCATAGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGT
* *
1459278 TTTGGAAAT-AAAT
66 TTTAGAAATAAAAC
*
1459291 CGGAGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
1459309 GATTATGGAG
Statistics
Matches: 154, Mismatches: 18, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
77 1 0.01
78 19 0.12
79 132 0.86
80 2 0.01
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.28
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCATAGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGT
TTTAGAAATAAAAC
Found at i:1459362 original size:51 final size:50
Alignment explanation
Indices: 1459231--1459372 Score: 198
Period size: 50 Copynumber: 2.9 Consensus size: 50
1459221 GAGTATCCCC
* *
1459231 TTAGAAAT-AA-CGGGGTTGGAGTATCCCCGATTGTGAAAAATCGGTGTT
1 TTAGAAATAAATCGGAGTTGGAGTATCCCCGATTATGAAAAATCGGTGTT
* * * *
1459279 TTGGAAATAAATCGGAGTTGGAGTATCCCCGATTATGGAGAATGGGTGTT
1 TTAGAAATAAATCGGAGTTGGAGTATCCCCGATTATGAAAAATCGGTGTT
*
1459329 TTAGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAGAAAAAT
1 TTAGAAAT-AAATCGGAGTTGGAGTATCCCCGATTATGAAAAAT
1459373 TGAGAAACTT
Statistics
Matches: 81, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
48 7 0.09
49 2 0.02
50 40 0.49
51 32 0.40
ACGTcount: A:0.33, C:0.11, G:0.27, T:0.28
Consensus pattern (50 bp):
TTAGAAATAAATCGGAGTTGGAGTATCCCCGATTATGAAAAATCGGTGTT
Found at i:1461828 original size:19 final size:20
Alignment explanation
Indices: 1461804--1461857 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 20
1461794 AGCGATACAT
*
1461804 TGTATCGATACAAAACT-TA
1 TGTATCGATACAAAACTGAA
**
1461823 TGTATCGATACATTTACTGAA
1 TGTATCGATACA-AAACTGAA
1461844 TGTATCGATACAAA
1 TGTATCGATACAAA
1461858 TTATTGAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 12 0.43
20 3 0.11
21 13 0.46
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.33
Consensus pattern (20 bp):
TGTATCGATACAAAACTGAA
Found at i:1465485 original size:15 final size:15
Alignment explanation
Indices: 1465454--1465482 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
1465444 GTTTTCCCTC
1465454 AAACATTTTTGAATT
1 AAACATTTTTGAATT
1465469 AAACA-TTTTGAATT
1 AAACATTTTTGAATT
1465483 TAATTTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.45
Consensus pattern (15 bp):
AAACATTTTTGAATT
Found at i:1473059 original size:48 final size:48
Alignment explanation
Indices: 1472988--1473085 Score: 178
Period size: 48 Copynumber: 2.0 Consensus size: 48
1472978 CTTGTTACGA
*
1472988 GGGTTTGACTAATATCAACTTAAAATACTGACTACATAACAAATATCT
1 GGGTTTGACTAATATCAACTTAAAATACTAACTACATAACAAATATCT
*
1473036 GGGTTTGACTAATATCAACTTAAAATACTAACTACATAGCAAATATCT
1 GGGTTTGACTAATATCAACTTAAAATACTAACTACATAACAAATATCT
1473084 GG
1 GG
1473086 TCAGGTGCAA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.31
Consensus pattern (48 bp):
GGGTTTGACTAATATCAACTTAAAATACTAACTACATAACAAATATCT
Found at i:1481651 original size:21 final size:21
Alignment explanation
Indices: 1481622--1481662 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
1481612 TCACACTTAC
1481622 AATAATTATAATAATTATAAT
1 AATAATTATAATAATTATAAT
* * *
1481643 AATATTTATTATATTTATAA
1 AATAATTATAATAATTATAA
1481663 ATATAATAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
AATAATTATAATAATTATAAT
Found at i:1483599 original size:14 final size:15
Alignment explanation
Indices: 1483568--1483600 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
1483558 GTAATAGTTG
1483568 TGTTTTTATATAACA
1 TGTTTTTATATAACA
*
1483583 TGTTTTTATTTAA-A
1 TGTTTTTATATAACA
1483597 TGTT
1 TGTT
1483601 ATGTCTTTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.27, C:0.03, G:0.09, T:0.61
Consensus pattern (15 bp):
TGTTTTTATATAACA
Found at i:1483720 original size:17 final size:18
Alignment explanation
Indices: 1483692--1483725 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
1483682 TAAATTAAAT
1483692 AAATAAATAATATAATTA
1 AAATAAATAATATAATTA
1483710 AAATAAA-AATATAATT
1 AAATAAATAATATAATT
1483726 GCATCTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AAATAAATAATATAATTA
Found at i:1486761 original size:48 final size:48
Alignment explanation
Indices: 1486690--1486787 Score: 196
Period size: 48 Copynumber: 2.0 Consensus size: 48
1486680 CTTGTTACTA
1486690 GGGTTTGACTAATATCAACTTAAAATACTGACTACATAACAAATATCT
1 GGGTTTGACTAATATCAACTTAAAATACTGACTACATAACAAATATCT
1486738 GGGTTTGACTAATATCAACTTAAAATACTGACTACATAACAAATATCT
1 GGGTTTGACTAATATCAACTTAAAATACTGACTACATAACAAATATCT
1486786 GG
1 GG
1486788 TCAGGTGCAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.31
Consensus pattern (48 bp):
GGGTTTGACTAATATCAACTTAAAATACTGACTACATAACAAATATCT
Found at i:1495358 original size:21 final size:21
Alignment explanation
Indices: 1495329--1495369 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
1495319 TCACACTTAC
1495329 AATAATTATAATAATTATAAT
1 AATAATTATAATAATTATAAT
* * *
1495350 AATATTTATTATATTTATAA
1 AATAATTATAATAATTATAA
1495370 ATATAATAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
AATAATTATAATAATTATAAT
Found at i:1497306 original size:14 final size:15
Alignment explanation
Indices: 1497275--1497307 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
1497265 GTAATAGTTG
1497275 TGTTTTTATATAACA
1 TGTTTTTATATAACA
*
1497290 TGTTTTTATTTAA-A
1 TGTTTTTATATAACA
1497304 TGTT
1 TGTT
1497308 ATGTCTTTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.27, C:0.03, G:0.09, T:0.61
Consensus pattern (15 bp):
TGTTTTTATATAACA
Found at i:1497427 original size:17 final size:18
Alignment explanation
Indices: 1497399--1497432 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
1497389 TAAATTAAAT
1497399 AAATAAATAATATAATTA
1 AAATAAATAATATAATTA
1497417 AAATAAA-AATATAATT
1 AAATAAATAATATAATT
1497433 GCATCTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AAATAAATAATATAATTA
Found at i:1502572 original size:17 final size:18
Alignment explanation
Indices: 1502541--1502586 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
1502531 AAATATTTCG
*
1502541 AAATAA-ATAAAT-AAAT
1 AAATAATATAATTAAAAT
1502557 AAATAATATAATTAAAAT
1 AAATAATATAATTAAAAT
*
1502575 AAA-AATACAATT
1 AAATAATATAATT
1502587 GCATTTTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
16 6 0.23
17 13 0.50
18 7 0.27
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (18 bp):
AAATAATATAATTAAAAT
Found at i:1505350 original size:21 final size:21
Alignment explanation
Indices: 1505326--1505379 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
1505316 TATCCAAATG
1505326 TATCGATACATTTGTAGAATA
1 TATCGATACATTTGTAGAATA
* *
1505347 TATCGATACATTTGTGGAATG
1 TATCGATACATTTGTAGAATA
1505368 TATCGATACATT
1 TATCGATACATT
1505380 CTACAAATGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.39
Consensus pattern (21 bp):
TATCGATACATTTGTAGAATA
Found at i:1505388 original size:21 final size:20
Alignment explanation
Indices: 1505320--1505391 Score: 63
Period size: 21 Copynumber: 3.5 Consensus size: 20
1505310 AAAATTTATC
*
1505320 CAAATGTATCGATACATTTG
1 CAAATGTATCGATACATTTA
* * *
1505340 TAGAATATATCGATACATTTGT
1 CA-AATGTATCGATACATTT-A
**
1505362 GGAATGTATCGATACATTCTA
1 CAAATGTATCGATACATT-TA
1505383 CAAATGTAT
1 CAAATGTAT
1505392 TAATACATGG
Statistics
Matches: 40, Mismatches: 9, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
20 1 0.03
21 38 0.95
22 1 0.03
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.36
Consensus pattern (20 bp):
CAAATGTATCGATACATTTA
Found at i:1505472 original size:32 final size:32
Alignment explanation
Indices: 1505436--1505657 Score: 372
Period size: 32 Copynumber: 7.2 Consensus size: 32
1505426 TTCAGCGATT
1505436 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
1505468 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
1505500 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
1505532 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
1505564 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
1505596 TGTATCGATACATAA--G-TGT-T-G-T---A
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
1505619 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
1505651 TGTATCG
1 TGTATCG
1505658 CTAGGAAGCT
Statistics
Matches: 180, Mismatches: 1, Indels: 18
0.90 0.01 0.09
Matches are distributed among these distances:
23 16 0.09
26 4 0.02
27 2 0.01
28 2 0.01
29 4 0.02
30 1 0.01
32 151 0.84
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:1505625 original size:23 final size:23
Alignment explanation
Indices: 1505595--1505642 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
1505585 TATCGATACA
1505595 ATGTATCGATACATAAGTGTTGT
1 ATGTATCGATACATAAGTGTTGT
*
1505618 ATGTATCGATACATAAGTTTTGT
1 ATGTATCGATACATAAGTGTTGT
1505641 AT
1 AT
1505643 CGATACAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (23 bp):
ATGTATCGATACATAAGTGTTGT
Found at i:1505719 original size:13 final size:13
Alignment explanation
Indices: 1505701--1505726 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1505691 CATTTTTTTG
1505701 TGTATCGATACAT
1 TGTATCGATACAT
1505714 TGTATCGATACAT
1 TGTATCGATACAT
1505727 CTTTTCTTCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1505723 original size:33 final size:34
Alignment explanation
Indices: 1505681--1505747 Score: 102
Period size: 34 Copynumber: 2.0 Consensus size: 34
1505671 GCCAAGGAAA
*
1505681 TGTATCGATACAT-TTTT-TTGTGTATCGATACAT
1 TGTATCGATACATCTTTTCTT-CGTATCGATACAT
1505714 TGTATCGATACATCTTTTCTTCGTATCGATACAT
1 TGTATCGATACATCTTTTCTTCGTATCGATACAT
1505748 CTAGGAAGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
33 13 0.42
34 16 0.52
35 2 0.06
ACGTcount: A:0.24, C:0.16, G:0.13, T:0.46
Consensus pattern (34 bp):
TGTATCGATACATCTTTTCTTCGTATCGATACAT
Found at i:1508151 original size:51 final size:51
Alignment explanation
Indices: 1508090--1508187 Score: 130
Period size: 51 Copynumber: 1.9 Consensus size: 51
1508080 AATTCTCCGC
1508090 AATCGAGGATA-TCCCAAC-TCTGATTTTATTT-TCAAAACACTAATTTTCTAT
1 AATCGAGGATACT-CCAACTTC-GATTTTATTTCT-AAAACACTAATTTTCTAT
* *
1508141 AATCGGGGATACTCCAACTTCGATTTTATTTCTAAAACATTAATTTT
1 AATCGAGGATACTCCAACTTCGATTTTATTTCTAAAACACTAATTTT
1508188 TCATCGGGGA
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
51 38 0.90
52 4 0.10
ACGTcount: A:0.33, C:0.18, G:0.09, T:0.40
Consensus pattern (51 bp):
AATCGAGGATACTCCAACTTCGATTTTATTTCTAAAACACTAATTTTCTAT
Found at i:1508260 original size:28 final size:27
Alignment explanation
Indices: 1508188--1508264 Score: 102
Period size: 27 Copynumber: 2.8 Consensus size: 27
1508178 CATTAATTTT
1508188 TCATCGGGGATACTCCAACCCCGTTAA
1 TCATCGGGGATACTCCAACCCCGTTAA
*
1508215 TCATCGGGGATACTCCAACCTCGTT-A
1 TCATCGGGGATACTCCAACCCCGTTAA
**
1508241 TTTTCGAGGGGATACTCCAACCCC
1 TCATC--GGGGATACTCCAACCCC
1508265 TGGCTTTATT
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 4 0.09
27 24 0.55
28 16 0.36
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.25
Consensus pattern (27 bp):
TCATCGGGGATACTCCAACCCCGTTAA
Found at i:1508394 original size:79 final size:80
Alignment explanation
Indices: 1508217--1508396 Score: 247
Period size: 80 Copynumber: 2.3 Consensus size: 80
1508207 CCCGTTAATC
* * * *
1508217 ATCGGGGATACTCCAACCTCGTTATTTTCGAGGGGATACTCCAACCCCTGGCTTTATTTCTAAAA
1 ATCGGGGATACTCCAACCCCGTTATCTCCGAGGAGATACTCCAACCCCTGGCTTTATTTCTAAAA
* *
1508282 TATTAATTTCTCATA
66 TATCAATTTCTCACA
*
1508297 ATCGGGGATACTCCAACCCCGTTATCTCCGAGGAGATACTCCAACCCC-GGTTTTATTTCT-AAA
1 ATCGGGGATACTCCAACCCCGTTATCTCCGAGGAGATACTCCAACCCCTGGCTTTATTTCTAAAA
* *
1508360 TCATCGATTTTTCACA
66 T-ATCAATTTCTCACA
*
1508376 ATCGGGGATACTTCAACCCCG
1 ATCGGGGATACTCCAACCCCG
1508397 ACTTTATTTT
Statistics
Matches: 89, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
78 4 0.04
79 41 0.46
80 44 0.49
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.31
Consensus pattern (80 bp):
ATCGGGGATACTCCAACCCCGTTATCTCCGAGGAGATACTCCAACCCCTGGCTTTATTTCTAAAA
TATCAATTTCTCACA
Found at i:1508421 original size:51 final size:52
Alignment explanation
Indices: 1508331--1508500 Score: 200
Period size: 52 Copynumber: 3.3 Consensus size: 52
1508321 TCTCCGAGGA
* * * * *
1508331 GATACTCCAACCCCGGTTTTA-TTTCTAAATCATCGATTTTTCACAATCGGG
1 GATACTCCAACCCCGATTTTATTTTCAAAAACACCAATTTTTCACAATCGGG
* * * **
1508382 GATACTTCAACCCCGACTTTATTTTC-AAAACACCAATTTTCCTTTAATCGGG
1 GATACTCCAACCCCGATTTTATTTTCAAAAACACCAATTTTTC-ACAATCGGG
* * *
1508434 GATACTCCAACTCCGATTTTATTTTCAAAAACACCAATTTTTCACAATTGAG
1 GATACTCCAACCCCGATTTTATTTTCAAAAACACCAATTTTTCACAATCGGG
1508486 GATACTCCAACCCCG
1 GATACTCCAACCCCG
1508501 TTAATCATCG
Statistics
Matches: 98, Mismatches: 18, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
51 30 0.31
52 53 0.54
53 15 0.15
ACGTcount: A:0.29, C:0.27, G:0.11, T:0.33
Consensus pattern (52 bp):
GATACTCCAACCCCGATTTTATTTTCAAAAACACCAATTTTTCACAATCGGG
Found at i:1508552 original size:28 final size:27
Alignment explanation
Indices: 1508483--1508554 Score: 101
Period size: 27 Copynumber: 2.6 Consensus size: 27
1508473 TTTCACAATT
1508483 GAGGATACTCCAACCCCGTTAATCATC
1 GAGGATACTCCAACCCCGTTAATCATC
**
1508510 GAGGATACTCCAACCCCGTT-ATTTTC
1 GAGGATACTCCAACCCCGTTAATCATC
1508536 GAGGGGATACTCCAACCCC
1 GA--GGATACTCCAACCCC
1508555 CGGCTTTATT
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
26 6 0.15
27 20 0.49
28 15 0.37
ACGTcount: A:0.26, C:0.33, G:0.18, T:0.22
Consensus pattern (27 bp):
GAGGATACTCCAACCCCGTTAATCATC
Found at i:1508683 original size:79 final size:80
Alignment explanation
Indices: 1508507--1508684 Score: 245
Period size: 80 Copynumber: 2.2 Consensus size: 80
1508497 CCCGTTAATC
* * *
1508507 ATCGAGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCCGGCTTTATTTCTAAAA
1 ATCGGGGATACTCCAACCCCGTTATCTCCGAGGGGATACTCCAACCCCCGGCTTTATTTCTAAAA
* *
1508572 TATTAATTTCTCATA
66 TATGAATTTCTCACA
* *
1508587 ATCGGGGATACTCCAACCCCGTTATCTCCGAGGGGATACTCCAA-CCCCGGTTTTATTTC-CAAA
1 ATCGGGGATACTCCAACCCCGTTATCTCCGAGGGGATACTCCAACCCCCGGCTTTATTTCTAAAA
*
1508650 TCATCGATTTTC-CACA
66 T-AT-GAATTTCTCACA
1508666 ATCGGGGATACTCCAACCC
1 ATCGGGGATACTCCAACCC
1508685 TGGCTTTATT
Statistics
Matches: 88, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
78 4 0.05
79 38 0.43
80 46 0.52
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.29
Consensus pattern (80 bp):
ATCGGGGATACTCCAACCCCGTTATCTCCGAGGGGATACTCCAACCCCCGGCTTTATTTCTAAAA
TATGAATTTCTCACA
Found at i:1508715 original size:290 final size:286
Alignment explanation
Indices: 1508114--1508723 Score: 1024
Period size: 290 Copynumber: 2.1 Consensus size: 286
1508104 CAACTCTGAT
* * * *
1508114 TTTATTTTCAAAACACTAATTTT-CTATAATCGGGGATACTCCAACTTCGATTTTATTTCTAAAA
1 TTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACTCCAACTCCGATTTTATTTCAAAAA
** * * *
1508178 CATTAATTTTTCATCGGGGATACTCCAACCCCGTTAATCATCGGGGATACTCCAACCTCGTTATT
66 CACCAATTTTTCATCGAGGATACTCCAACCCCGTTAATCATCGAGGATACTCCAACCCCGTTATT
*
1508243 TTCGAGGGGATACTCCAACCCCTGGCTTTATTTCTAAAATATTAATTTCTCATAATCGGGGATAC
131 TTCGAGGGGATACTCCAACCCCCGGCTTTATTTCTAAAATATTAATTTCTCATAATCGGGGATAC
* *
1508308 TCCAACCCCGTTATCTCCGAGGAGATACTCCAACCCCGGTTTTATTTCTAAATCATCGATTTTTC
196 TCCAACCCCGTTATCTCCGAGGAGATACTCCAACCCCGGTTTTATTTCCAAATCATCGATTTTCC
*
1508373 ACAATCGGGGATACTTCAACCCCGAC
261 ACAATCGGGGATACTCCAACCCCGAC
1508399 TTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAA
1 TTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACTCCAACTCCGATTTTA-TTTCAAAA
*
1508464 ACACCAATTTTTCACAATTGAGGATACTCCAACCCCGTTAATCATCGAGGATACTCCAACCCCGT
65 ACACCAATTTTT--C-ATCGAGGATACTCCAACCCCGTTAATCATCGAGGATACTCCAACCCCGT
1508529 TATTTTCGAGGGGATACTCCAACCCCCGGCTTTATTTCTAAAATATTAATTTCTCATAATCGGGG
127 TATTTTCGAGGGGATACTCCAACCCCCGGCTTTATTTCTAAAATATTAATTTCTCATAATCGGGG
*
1508594 ATACTCCAACCCCGTTATCTCCGAGGGGATACTCCAACCCCGGTTTTATTTCCAAATCATCGATT
192 ATACTCCAACCCCGTTATCTCCGAGGAGATACTCCAACCCCGGTTTTATTTCCAAATCATCGATT
* *
1508659 TTCCACAATCGGGGATACTCCAACCCTGGC
257 TTCCACAATCGGGGATACTCCAACCCCGAC
1508689 TTTATTTTCAAAACACCAATTTTCCTTTAATCGGG
1 TTTATTTTCAAAACACCAATTTTCCTTTAATCGGG
1508724 TGTTAGGATC
Statistics
Matches: 303, Mismatches: 17, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
285 22 0.07
286 30 0.10
287 17 0.06
289 1 0.00
290 233 0.77
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (286 bp):
TTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACTCCAACTCCGATTTTATTTCAAAAA
CACCAATTTTTCATCGAGGATACTCCAACCCCGTTAATCATCGAGGATACTCCAACCCCGTTATT
TTCGAGGGGATACTCCAACCCCCGGCTTTATTTCTAAAATATTAATTTCTCATAATCGGGGATAC
TCCAACCCCGTTATCTCCGAGGAGATACTCCAACCCCGGTTTTATTTCCAAATCATCGATTTTCC
ACAATCGGGGATACTCCAACCCCGAC
Found at i:1509084 original size:13 final size:13
Alignment explanation
Indices: 1509066--1509091 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1509056 TACACAAAGT
1509066 ATGTATCGATACA
1 ATGTATCGATACA
1509079 ATGTATCGATACA
1 ATGTATCGATACA
1509092 TAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1509089 original size:32 final size:33
Alignment explanation
Indices: 1509048--1509111 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
1509038 TAGCCAAACT
**
1509048 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
*
1509080 TGTATCGATACATAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
1509112 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.30
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:1515289 original size:13 final size:13
Alignment explanation
Indices: 1515270--1515307 Score: 60
Period size: 13 Copynumber: 2.9 Consensus size: 13
1515260 CATTTTTCTT
1515270 TGTATCGATACA-
1 TGTATCGATACAC
1515282 TGGTATCGATACAC
1 T-GTATCGATACAC
1515296 TGTATCGATACA
1 TGTATCGATACA
1515308 GGGGGATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 1 0.04
13 22 0.92
14 1 0.04
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:1515468 original size:20 final size:20
Alignment explanation
Indices: 1515425--1515470 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
1515415 AAATCTTTTG
1515425 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
1515446 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
1515466 CAAAA
1 CAAAA
1515471 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:1517197 original size:39 final size:40
Alignment explanation
Indices: 1517143--1517233 Score: 105
Period size: 39 Copynumber: 2.3 Consensus size: 40
1517133 GAGATTTTTT
* * *
1517143 TTTAATAAAAGGGGAGAATGCATAAATTTGCTAAAATTA-
1 TTTAATTAAGGGGGAGAATGCACAAATTTGCTAAAATTAC
* * *
1517182 TCTT-ATTAAGGGGGAGAATGTACGAATTTGTTAAAATTAC
1 T-TTAATTAAGGGGGAGAATGCACAAATTTGCTAAAATTAC
1517222 TTTAATTAAGGG
1 TTTAATTAAGGG
1517234 AGAAAGAAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
39 32 0.74
40 11 0.26
ACGTcount: A:0.40, C:0.05, G:0.21, T:0.34
Consensus pattern (40 bp):
TTTAATTAAGGGGGAGAATGCACAAATTTGCTAAAATTAC
Found at i:1517904 original size:20 final size:20
Alignment explanation
Indices: 1517859--1517911 Score: 72
Period size: 19 Copynumber: 2.7 Consensus size: 20
1517849 GTAGCCAAAC
* **
1517859 TTGTATCGATACACAAAGTA
1 TTGTATCGATACATAAAAAA
1517879 -TGTATCGATACATAAAAAA
1 TTGTATCGATACATAAAAAA
1517898 TTGTATCGATACAT
1 TTGTATCGATACAT
1517912 TGGCTTGTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.32
Consensus pattern (20 bp):
TTGTATCGATACATAAAAAA
Found at i:1518263 original size:20 final size:20
Alignment explanation
Indices: 1518238--1518308 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
1518228 ACCCTGAAAA
1518238 GTATCGATACACATTTAAAT
1 GTATCGATACACATTTAAAT
* *
1518258 GTATCGATACAGATTGTATA-
1 GTATCGATACACATT-TAAAT
**
1518278 GTATCGATACACA-CAAATAT
1 GTATCGATACACATTTAA-AT
1518298 GTATCGATACA
1 GTATCGATACA
1518309 GGACATTGGC
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
18 1 0.02
19 1 0.02
20 37 0.88
21 3 0.07
ACGTcount: A:0.39, C:0.15, G:0.14, T:0.31
Consensus pattern (20 bp):
GTATCGATACACATTTAAAT
Found at i:1518360 original size:53 final size:53
Alignment explanation
Indices: 1518278--1518414 Score: 229
Period size: 53 Copynumber: 2.6 Consensus size: 53
1518268 AGATTGTATA
1518278 GTATCGATACACACAAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
1 GTATCGATACACAC-AATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
* * *
1518332 GTATCGATGCACACAATATGTATCGATACAGGTCATTGGCAGTAGCTAAATTT
1 GTATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
*
1518385 GTATCGATACACAAAATATGTATCGATACA
1 GTATCGATACACACAATATGTATCGATACA
1518415 TTGGAAGTAG
Statistics
Matches: 78, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
53 65 0.83
54 13 0.17
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (53 bp):
GTATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
Found at i:1518541 original size:13 final size:13
Alignment explanation
Indices: 1518523--1518560 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
1518513 TCACTATTCA
* *
1518523 TGTATCGATATAT
1 TGTATCGATACAG
1518536 TGTATCGATACAG
1 TGTATCGATACAG
1518549 TGTATCGATACA
1 TGTATCGATACA
1518561 TCATAAATAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:1519094 original size:34 final size:35
Alignment explanation
Indices: 1519031--1519097 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
1519021 CTAAGTGATT
1519031 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
1519067 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
1519098 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:1523102 original size:52 final size:51
Alignment explanation
Indices: 1523018--1524072 Score: 364
Period size: 49 Copynumber: 21.7 Consensus size: 51
1523008 TGAGAAAAAG
* * * *
1523018 GATGTCAATGTGCTGATTCACGG-TCAATGACATTAGACTTAAAGATTAGAA
1 GATGCCAATGTGCTGATTCAAGGCT-AACGACATTGGACTTAAAGATTAGAA
* ** * *
1523069 GAATGCCAATGTACTGATTCAAGGCTAACGACATTGGGTTTTAAAGATGACGGA
1 G-ATGCCAATGTGCTGATTCAAGGCTAACGACATT-GGACTTAAAGATTA-GAA
* * * * *
1523123 GACGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGA-T-GAA
1 GATGCCAATGTGCTGATTCAAGGCTAACGACATTGGACTTAAAGATTAGAA
* * * * * *
1523172 GGTGCCAATGTGCTGATTTAAGGCCAGTATGACTAAGTGAGGCATTATTAGGATGACTTA-AA
1 GATGCCAATGTGCTGATTCAAGGCTA--ACGAC--ATTG-GAC-TTA--A--A-GA-TTAGAA
* * * *
1523234 GATGACAAAGGCGTCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGA-T-GAA
1 GAT-------GC--CAATGTGCTGATTCAAGGCTAACGACATTGGACTTAAAGATTAGAA
* * * *
1523292 GATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAA
1 GATGCCAATGTGCTGATTCAAGGCTAACGACATTGGACTTAAAGATTA-GAA
* * * * * ** *
1523344 GACGCCAATATGCTGATTCAAGGCCAGCGATACCGGACGTAAAGA-T-GAA
1 GATGCCAATGTGCTGATTCAAGGCTAACGACATTGGACTTAAAGATTAGAA
* * *
1523393 GATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGC------A-T----
1 GATGCCAATGTGCTGATTCAAGGCTAACGACATTGGACTTAAAGATTAGAA
* * *
1523433 -ATGCCAATGTGTTGATTCAAGGCCAACGACATTGGTCTTAAAGA-T-GAA
1 GATGCCAATGTGCTGATTCAAGGCTAACGACATTGGACTTAAAGATTAGAA
* * * * * **
1523481 G-TGCCAATATGCTAATTCAAGGCCAGCGATACCGGACTTAAAGATT--AA
1 GATGCCAATGTGCTGATTCAAGGCTAACGACATTGGACTTAAAGATTAGAA
* * * *
1523529 GATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAA
1 GATGCCAATGTGCTGATTCAAGGCTAACGACATTGGACTTAAAGATTA-GAA
** * * * * ** *
1523581 GGCGCCAATATGCTGATTCAAGGCCAGCGATACCGGACATAAAGA-T-GAA
1 GATGCCAATGTGCTGATTCAAGGCTAACGACATTGGACTTAAAGATTAGAA
* * *
1523630 GATGCCAATGTGCTGATTCAAGGCCAGCGACATTGG-------GCTT----
1 GATGCCAATGTGCTGATTCAAGGCTAACGACATTGGACTTAAAGATTAGAA
* * *
1523670 -ATGCCAATGTGTTGATTCAAGGCCAACGACATTGGTCTTAAAGA-T-GAA
1 GATGCCAATGTGCTGATTCAAGGCTAACGACATTGGACTTAAAGATTAGAA
* * * * * **
1523718 G-TACCAATATGCTGATTCAAGGCCAGCGATACCAGGACTTAAAGA-T-GAA
1 GATGCCAATGTGCTGATTCAAGGCTAACGACA-TTGGACTTAAAGATTAGAA
* ** *
1523767 GATGCCAATGTGCTGATTCAAGGCCAGTGACATTGG-------GCTT----
1 GATGCCAATGTGCTGATTCAAGGCTAACGACATTGGACTTAAAGATTAGAA
* * * *
1523807 -ATGCCAATGTGTTGATTCAAGGCCAACAACATTGGTCTTAAAGA-T-GAA
1 GATGCCAATGTGCTGATTCAAGGCTAACGACATTGGACTTAAAGATTAGAA
* * * ***
1523855 G-TGCCAATATGCTGATTCAAGGCCAACGATACCAGACTTAAAGA-T-GAA
1 GATGCCAATGTGCTGATTCAAGGCTAACGACATTGGACTTAAAGATTAGAA
* *
1523903 GATGCCAATGTGTTGATTCAAGGCCAACGACATTAGG-C-------TT----
1 GATGCCAATGTGCTGATTCAAGGCTAACGACATT-GGACTTAAAGATTAGAA
* * *
1523943 -ATGCCAATGTGTTGATTCAAGGCCAACGACATTGGTCTTAAAGA-T-GAA
1 GATGCCAATGTGCTGATTCAAGGCTAACGACATTGGACTTAAAGATTAGAA
* * * *
1523991 G-TGCCAATATGCTGATTCAAGGCCAGCG--ATTCCAGACTTAAAGA-T-GAA
1 GATGCCAATGTGCTGATTCAAGGCTAACGACATT--GGACTTAAAGATTAGAA
* *
1524039 GATGCCAATGTGCTGATTCAAGGCCAGCGACATT
1 GATGCCAATGTGCTGATTCAAGGCTAACGACATT
1524073 AGGCTTATGC
Statistics
Matches: 782, Mismatches: 130, Indels: 184
0.71 0.12 0.17
Matches are distributed among these distances:
38 2 0.00
39 132 0.17
42 2 0.00
43 5 0.01
45 5 0.01
46 5 0.01
48 141 0.18
49 239 0.31
50 27 0.03
51 8 0.01
52 117 0.15
53 41 0.05
54 5 0.01
55 3 0.00
57 1 0.00
58 6 0.01
59 1 0.00
60 4 0.01
61 1 0.00
62 5 0.01
63 1 0.00
65 3 0.00
66 2 0.00
67 3 0.00
69 4 0.01
71 19 0.02
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.24
Consensus pattern (51 bp):
GATGCCAATGTGCTGATTCAAGGCTAACGACATTGGACTTAAAGATTAGAA
Found at i:1523541 original size:136 final size:138
Alignment explanation
Indices: 1523293--1523564 Score: 449
Period size: 136 Copynumber: 2.0 Consensus size: 138
1523283 AAAGATGAAG
*
1523293 ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGACGCCAATATGCT
1 ATGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATG--AAAGACGCCAATATGCT
*
1523358 GATTCAAGGCCAGCGATACCGGACGTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCAGCGA
64 AATTCAAGGCCAGCGATACCGGACGTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCAGCGA
1523423 CATTGGGCAT
129 CATTGGGCAT
* * *
1523433 ATGCCAATGTGTTGATTCAAGGCCAACGACATTGGTCTTAAAGATG-AAG-TGCCAATATGCTAA
1 ATGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAAGACGCCAATATGCTAA
* *
1523496 TTCAAGGCCAGCGATACCGGACTTAAAGATTAAGATGCCAATGTGCTGATTCAAGGCCAGCGACA
66 TTCAAGGCCAGCGATACCGGACGTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCAGCGACA
1523561 TTGG
131 TTGG
1523565 ACTTAAAGAT
Statistics
Matches: 125, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
136 79 0.63
137 3 0.02
140 43 0.34
ACGTcount: A:0.32, C:0.21, G:0.25, T:0.22
Consensus pattern (138 bp):
ATGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAAGACGCCAATATGCTAA
TTCAAGGCCAGCGATACCGGACGTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCAGCGACA
TTGGGCAT
Found at i:1523663 original size:237 final size:237
Alignment explanation
Indices: 1523248--1523807 Score: 1021
Period size: 237 Copynumber: 2.4 Consensus size: 237
1523238 ACAAAGGCGT
**
1523248 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCGATACCGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAA
1523313 GGCCAGCGACATTGGACTTAAAGATGACAAAGACGCCAATATGCTGATTCAAGGCCAGCGATACC
66 GGCCAGCGACATTGGACTTAAAGATGACAAAGACGCCAATATGCTGATTCAAGGCCAGCGATACC
*
1523378 GGACGTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCATATGCCAATGT
131 GGACATAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCATATGCCAATGT
*
1523443 GTTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGTGC
196 GTTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGTAC
* *
1523485 CAATATGCTAATTCAAGGCCAGCGATACCGGACTTAAAGATTAAGATGCCAATGTGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCGATACCGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAA
*
1523550 GGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATACC
66 GGCCAGCGACATTGGACTTAAAGATGACAAAGACGCCAATATGCTGATTCAAGGCCAGCGATACC
*
1523615 GGACATAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTATGCCAATGT
131 GGACATAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCATATGCCAATGT
1523680 GTTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGTAC
196 GTTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGTAC
1523722 CAATATGCTGATTCAAGGCCAGCGATACCAGGACTTAAAGATGAAGATGCCAATGTGCTGATTCA
1 CAATATGCTGATTCAAGGCCAGCGATACC-GGACTTAAAGATGAAGATGCCAATGTGCTGATTCA
* *
1523787 AGGCCAGTGACATTGGGCTTA
65 AGGCCAGCGACATTGGACTTA
1523808 TGCCAATGTG
Statistics
Matches: 310, Mismatches: 12, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
237 257 0.83
238 53 0.17
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.23
Consensus pattern (237 bp):
CAATATGCTGATTCAAGGCCAGCGATACCGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAA
GGCCAGCGACATTGGACTTAAAGATGACAAAGACGCCAATATGCTGATTCAAGGCCAGCGATACC
GGACATAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCATATGCCAATGT
GTTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGTAC
Found at i:1523674 original size:39 final size:39
Alignment explanation
Indices: 1523631--1523846 Score: 135
Period size: 39 Copynumber: 5.0 Consensus size: 39
1523621 AAAGATGAAG
1523631 ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTT
1 ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTT
* * *
1523670 ATGCCAATGTGTTGATTCAAGGCCAACGACATTGGTCTT
1 ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTT
* * ***
1523709 AAAGATGAAGTACCAATATGCTGATTCAAGGCCAGCGATACCAGGACTTAAAGATGAAG
1 ----AT---G--CCAATGTGCTGATTCAAGGCCAGCG--A-C---A-TT---G-GGCTT
*
1523768 ATGCCAATGTGCTGATTCAAGGCCAGTGACATTGGGCTT
1 ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTT
* * * *
1523807 ATGCCAATGTGTTGATTCAAGGCCAACAACATTGGTCTT
1 ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTT
1523846 A
1 A
1523847 AAGATGAAGT
Statistics
Matches: 135, Mismatches: 22, Indels: 40
0.69 0.11 0.20
Matches are distributed among these distances:
39 72 0.53
40 1 0.01
43 4 0.03
44 1 0.01
46 1 0.01
47 1 0.01
48 23 0.17
50 24 0.18
51 1 0.01
52 1 0.01
54 1 0.01
55 4 0.03
58 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.26
Consensus pattern (39 bp):
ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTT
Found at i:1523927 original size:273 final size:274
Alignment explanation
Indices: 1523530--1524097 Score: 951
Period size: 273 Copynumber: 2.1 Consensus size: 274
1523520 AAAGATTAAG
* * *
1523530 ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCT
1 ATGCCAATGTGTTGATTCAAGGCCAACAACATTGGACTTAAAGATG--AAAGGCGCCAATATGCT
* * *
1523595 GATTCAAGGCCAGCGATACCGGACATAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCAGCGA
64 GATTCAAGGCCAACGATACCAGACATAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCAACGA
*
1523660 CATTGGGCTTATGCCAATGTGTTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGTACCAA
129 CATTAGGCTTATGCCAATGTGTTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGTACCAA
1523725 TATGCTGATTCAAGGCCAGCGATACCAGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGG
194 TATGCTGATTCAAGGCCAGCGATACCA-GACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGG
* *
1523790 CCAGTGACATTGGGCTT
258 CCAGCGACATTAGGCTT
* *
1523807 ATGCCAATGTGTTGATTCAAGGCCAACAACATTGGTCTTAAAGATG-AA-GTGCCAATATGCTGA
1 ATGCCAATGTGTTGATTCAAGGCCAACAACATTGGACTTAAAGATGAAAGGCGCCAATATGCTGA
* *
1523870 TTCAAGGCCAACGATACCAGACTTAAAGATGAAGATGCCAATGTGTTGATTCAAGGCCAACGACA
66 TTCAAGGCCAACGATACCAGACATAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCAACGACA
*
1523935 TTAGGCTTATGCCAATGTGTTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGTGCCAATA
131 TTAGGCTTATGCCAATGTGTTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGTACCAATA
*
1524000 TGCTGATTCAAGGCCAGCGATTCCAGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCA
196 TGCTGATTCAAGGCCAGCGATACCAGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCA
1524065 GCGACATTAGGCTT
261 GCGACATTAGGCTT
*
1524079 ATGCTAATGTGTTGATTCA
1 ATGCCAATGTGTTGATTCA
1524098 TGGCTGTAGA
Statistics
Matches: 275, Mismatches: 16, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
272 70 0.25
273 161 0.59
274 2 0.01
277 42 0.15
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (274 bp):
ATGCCAATGTGTTGATTCAAGGCCAACAACATTGGACTTAAAGATGAAAGGCGCCAATATGCTGA
TTCAAGGCCAACGATACCAGACATAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCAACGACA
TTAGGCTTATGCCAATGTGTTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGTACCAATA
TGCTGATTCAAGGCCAGCGATACCAGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCA
GCGACATTAGGCTT
Found at i:1523964 original size:88 final size:87
Alignment explanation
Indices: 1523856--1524015 Score: 230
Period size: 88 Copynumber: 1.8 Consensus size: 87
1523846 AAAGATGAAG
* * *
1523856 TGCCAATATGCTGATTCAAGGCCAACGATACCAGACTTAAAGATGAAGATGCCAATGTGTTGATT
1 TGCCAATATGCTGATTCAAGGCCAACGACACCAGACTTAAAGATGAAG-TGCCAATATGCTGATT
1523921 CAAGGCCAACGACATTAGGCTTA
65 CAAGGCCAACGACATTAGGCTTA
* * *** *
1523944 TGCCAATGTGTTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGTGCCAATATGCTGATTC
1 TGCCAATATGCTGATTCAAGGCCAACGACACCAGACTTAAAGATGAAGTGCCAATATGCTGATTC
1524009 AAGGCCA
66 AAGGCCA
1524016 GCGATTCCAG
Statistics
Matches: 63, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
87 22 0.35
88 41 0.65
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.25
Consensus pattern (87 bp):
TGCCAATATGCTGATTCAAGGCCAACGACACCAGACTTAAAGATGAAGTGCCAATATGCTGATTC
AAGGCCAACGACATTAGGCTTA
Found at i:1523975 original size:136 final size:136
Alignment explanation
Indices: 1523530--1524097 Score: 947
Period size: 136 Copynumber: 4.1 Consensus size: 136
1523520 AAAGATTAAG
* * * *
1523530 ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCT
1 ATGCCAATGTGTTGATTCAAGGCCAACGACATTGGTCTTAAAGATG---AA-GTGCCAATATGCT
* *
1523595 GATTCAAGGCCAGCGATACCGGACATAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCAGCGA
62 GATTCAAGGCCAGCGATACCAGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCAGCGA
*
1523660 CATTGGGCTT
127 CATTAGGCTT
*
1523670 ATGCCAATGTGTTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGTACCAATATGCTGATT
1 ATGCCAATGTGTTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGTGCCAATATGCTGATT
*
1523735 CAAGGCCAGCGATACCAGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCAGTGACAT
66 CAAGGCCAGCGATACCA-GACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCAGCGACAT
*
1523800 TGGGCTT
130 TAGGCTT
*
1523807 ATGCCAATGTGTTGATTCAAGGCCAACAACATTGGTCTTAAAGATGAAGTGCCAATATGCTGATT
1 ATGCCAATGTGTTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGTGCCAATATGCTGATT
* * *
1523872 CAAGGCCAACGATACCAGACTTAAAGATGAAGATGCCAATGTGTTGATTCAAGGCCAACGACATT
66 CAAGGCCAGCGATACCAGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATT
1523937 AGGCTT
131 AGGCTT
1523943 ATGCCAATGTGTTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGTGCCAATATGCTGATT
1 ATGCCAATGTGTTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGTGCCAATATGCTGATT
*
1524008 CAAGGCCAGCGATTCCAGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATT
66 CAAGGCCAGCGATACCAGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATT
1524073 AGGCTT
131 AGGCTT
*
1524079 ATGCTAATGTGTTGATTCA
1 ATGCCAATGTGTTGATTCA
1524098 TGGCTGTAGA
Statistics
Matches: 406, Mismatches: 21, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
136 230 0.57
137 133 0.33
140 43 0.11
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (136 bp):
ATGCCAATGTGTTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGTGCCAATATGCTGATT
CAAGGCCAGCGATACCAGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATT
AGGCTT
Found at i:1524279 original size:21 final size:21
Alignment explanation
Indices: 1524255--1524322 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
1524245 ATGTAGCTGG
1524255 CCTTGAATCAGCACATTGGCA
1 CCTTGAATCAGCACATTGGCA
* *
1524276 CCTTTAAGTC--CA-ATGTAGCTGA
1 CCTTGAA-TCAGCACAT-TGGC--A
*
1524298 CCTTGACTCAGCACATTGGCA
1 CCTTGAATCAGCACATTGGCA
1524319 CCTT
1 CCTT
1524323 CATCTTTAAG
Statistics
Matches: 35, Mismatches: 5, Indels: 14
0.65 0.09 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.14
21 13 0.37
22 8 0.23
23 5 0.14
24 2 0.06
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (21 bp):
CCTTGAATCAGCACATTGGCA
Found at i:1524363 original size:92 final size:92
Alignment explanation
Indices: 1524199--1524928 Score: 1172
Period size: 92 Copynumber: 7.9 Consensus size: 92
1524189 TTGCCGGGCG
*
1524199 TCGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATGTAGCTGGCCTTGAATC
1 TCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATC
*
1524264 AGCACATTGGCACCTTTAAGTCCAATG
66 AGCACATTGGCACCTTTAAGTCCAATA
* * * *
1524291 TAGCTGACCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATC
1 TCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATC
*
1524356 AGCACATTGGCACCTTTAAGTCCAATG
66 AGCACATTGGCACCTTTAAGTCCAATA
* * * *
1524383 TAGTTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATC
1 TCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATC
1524448 AGCACATTGGCACCTTTAAGTCCAATA
66 AGCACATTGGCACCTTTAAGTCCAATA
* * *
1524475 TCGCTGGCCTTGTATCAGCATATTGGCATCTTCATCTTTAAGTCTAATGTAGCTGGCCTTGAATC
1 TCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATC
1524540 AGCACATTGGCACCTTTAAGTCCAATA
66 AGCACATTGGCACCTTTAAGTCCAATA
* *
1524567 TCGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATC
1 TCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATC
1524632 AGCACATTGGCACCTTTAAGTCCAATA
66 AGCACATTGGCACCTTTAAGTCCAATA
* * *
1524659 TCGCTGGCCTTGTATCAGCATATTGGCATCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGAATC
1 TCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATC
1524724 AGCACATTGGCACCTTTAAGTCCAATA
66 AGCACATTGGCACCTTTAAGTCCAATA
* ** *
1524751 TCGCTGGCCTTGAATCAGCATATTGGAACCTTTTTCTTTAAGTCCAATGTAGCTGGCCCTGAATC
1 TCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATC
*
1524816 AGCACATTGACACCTTTAAGTCCAATA
66 AGCACATTGGCACCTTTAAGTCCAATA
* * *
1524843 TAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGA
1 TCGCTGGCCTTGAATCAGCATATTGGCAC--CTT-CATCTTTAAGTCCAATGTAGCTGGCCTTGA
*
1524908 ATCAGCACATTGACATCCTTT
63 ATCAGCACATTGGCA-CCTTT
1524929 TTCTCATCTT
Statistics
Matches: 596, Mismatches: 38, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
92 548 0.92
94 2 0.00
95 41 0.07
96 5 0.01
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.32
Consensus pattern (92 bp):
TCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATC
AGCACATTGGCACCTTTAAGTCCAATA
Found at i:1524899 original size:52 final size:54
Alignment explanation
Indices: 1524829--1524975 Score: 165
Period size: 52 Copynumber: 2.7 Consensus size: 54
1524819 ACATTGACAC
* *
1524829 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CATTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACCATTTTCTCAT
* * *
1524881 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACA-CCATTTTCTCAT
* * * * *
1524936 CTTTAAG-CCTAATATCGTTGGCCGTGAATCAACATATTGA
1 CTTTAAGTCC-AATATAGCTGGCCTTGAATCAGCACATTGA
1524976 TGTAGCTGGC
Statistics
Matches: 79, Mismatches: 12, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
52 38 0.48
54 7 0.09
55 34 0.43
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (54 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACCATTTTCTCAT
Found at i:1525078 original size:43 final size:43
Alignment explanation
Indices: 1524978--1525429 Score: 445
Period size: 43 Copynumber: 9.8 Consensus size: 43
1524968 CATATTGATG
* * *
1524978 TAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTGAAGTCCAATG
1 TAGCTGGCCTTGAATCAGCATATTGGCA-C--C-T-TT-AAGTCCAATA
*
1525027 TAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATA
1 TAGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATA
* * * *
1525070 TCGTTGGCCTTGTATCAGCATATTGGCATCTTCATCTTTAAGTCCAATG
1 TAGCTGGCCTTGAATCAGCATATTGGCA----C--CTTTAAGTCCAATA
1525119 TAGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATA
1 TAGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATA
*
1525162 TCGCTGGCCTTGAATCAGCATATTGGCACCTTAATACCTTTAAGTCCAATA
1 TAGCTGGCCTTGAATCAGCATATTGG---C-----ACCTTTAAGTCCAATA
* * *
1525213 TCGCTGGCCTTGTATCAGCATATTGGCATCTTCATCTTTAAGTCCAATG
1 TAGCTGGCCTTGAATCAGCATATTGGCA----C--CTTTAAGTCCAATA
* *
1525262 TAGCTGGCCTTGAATTAGCACATTGGCACCTTTAAGTCCAATA
1 TAGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATA
* *
1525305 TCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATG
1 TAGCTGGCCTTGAATCAGCATATTGGCA----C--CTTTAAGTCCAATA
* *
1525354 TAGCTGGCCTTGAATCAGCACATTGACACCTTTAAGTCCAATA
1 TAGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATA
*
1525397 TAGCTGGCCTTGAATTAGCATATTGGCACCTTT
1 TAGCTGGCCTTGAATCAGCATATTGGCACCTTT
1525430 TCCATCTTTA
Statistics
Matches: 347, Mismatches: 30, Indels: 58
0.80 0.07 0.13
Matches are distributed among these distances:
43 153 0.44
44 2 0.01
45 4 0.01
46 2 0.01
47 3 0.01
48 2 0.01
49 140 0.40
51 41 0.12
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (43 bp):
TAGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATA
Found at i:1525144 original size:92 final size:91
Alignment explanation
Indices: 1524978--1525429 Score: 501
Period size: 92 Copynumber: 4.9 Consensus size: 91
1524968 CATATTGATG
* * *
1524978 TAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTGAAGTCCAATGTAGCTGGCCTTGAATC
1 TAGCTGGCCTTGAATCAGCACATTGGCA-CTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATC
*
1525043 AGCACATTGGCACCTTTAAGTCCAATA
65 AGCATATTGGCACCTTTAAGTCCAATA
* * * * *
1525070 TCGTTGGCCTTGTATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATC
1 TAGCTGGCCTTGAATCAGCACATTGGCA-CTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATC
1525135 AGCATATTGGCACCTTTAAGTCCAATA
65 AGCATATTGGCACCTTTAAGTCCAATA
* * * * *
1525162 TCGCTGGCCTTGAATCAGCATATTGGCACCTTAATACCTTTAAGTCCAATATCGCTGGCCTTGTA
1 TAGCTGGCCTTGAATCAGCACATTGGCA-CTTCAT--CTTTAAGTCCAATATAGCTGGCCTTGAA
*
1525227 TCAGCATATTGGCATCTTCATCTTTAAGTCCAATG
63 TCAGCATATTGGCA----C--CTTTAAGTCCAATA
* *
1525262 TAGCTGGCCTTGAATTAGCACATTGGCA---C--CTTTAAGTCCAATATCGCTGGCCTTGAATCA
1 TAGCTGGCCTTGAATCAGCACATTGGCACTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCA
*
1525322 GCATATTGGCACCTTCATCTTTAAGTCCAATG
66 GCATATTGGCA----C--CTTTAAGTCCAATA
* *
1525354 TAGCTGGCCTTGAATCAGCACATT-G-A---CACCTTTAAGTCCAATATAGCTGGCCTTGAATTA
1 TAGCTGGCCTTGAATCAGCACATTGGCACTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCA
1525414 GCATATTGGCACCTTT
66 GCATATTGGCACCTTT
1525430 TCCATCTTTA
Statistics
Matches: 325, Mismatches: 25, Indels: 26
0.86 0.07 0.07
Matches are distributed among these distances:
86 4 0.01
88 1 0.00
90 2 0.01
91 1 0.00
92 239 0.74
94 39 0.12
98 1 0.00
100 38 0.12
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (91 bp):
TAGCTGGCCTTGAATCAGCACATTGGCACTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCA
GCATATTGGCACCTTTAAGTCCAATA
Found at i:1525150 original size:21 final size:21
Alignment explanation
Indices: 1525126--1525193 Score: 54
Period size: 21 Copynumber: 3.2 Consensus size: 21
1525116 ATGTAGCTGG
1525126 CCTTGAATCAGCATATTGGCA
1 CCTTGAATCAGCATATTGGCA
*
1525147 CCTTTAAGTC--CAATATCGCTGG--
1 CCTTGAA-TCAGC-ATAT---TGGCA
1525169 CCTTGAATCAGCATATTGGCA
1 CCTTGAATCAGCATATTGGCA
1525190 CCTT
1 CCTT
1525194 AATACCTTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 18
0.64 0.04 0.32
Matches are distributed among these distances:
19 3 0.08
20 1 0.03
21 16 0.44
22 12 0.33
23 1 0.03
24 3 0.08
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (21 bp):
CCTTGAATCAGCATATTGGCA
Found at i:1525461 original size:52 final size:55
Alignment explanation
Indices: 1525383--1525520 Score: 167
Period size: 52 Copynumber: 2.6 Consensus size: 55
1525373 ACATTGACAC
* * *
1525383 CTTTAAGTCCAATATAGCTGGCCTTGAATTAGCATATTGGCA-CC-TTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
* *
1525435 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
* * *
1525490 CTTTAAG-CCTAATATCGTTGGCCGTGAATCA
1 CTTTAAGTCC-AATATAGCTGGCCTTGAATCA
1525521 ACATATTGGC
Statistics
Matches: 72, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
52 37 0.51
53 2 0.03
54 6 0.08
55 27 0.38
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (55 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
Found at i:1526403 original size:13 final size:13
Alignment explanation
Indices: 1526385--1526409 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1526375 CATAGAGTGT
1526385 TGTATCGATACAA
1 TGTATCGATACAA
1526398 TGTATCGATACA
1 TGTATCGATACA
1526410 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1526491 original size:13 final size:13
Alignment explanation
Indices: 1526473--1526497 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1526463 ATTATTCAAA
1526473 TGTATCGATACAT
1 TGTATCGATACAT
1526486 TGTATCGATACA
1 TGTATCGATACA
1526498 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1526634 original size:52 final size:52
Alignment explanation
Indices: 1526506--1526626 Score: 215
Period size: 52 Copynumber: 2.3 Consensus size: 52
1526496 CACTGATCTT
*
1526506 TGTATCGATACATGCAGGCAAATTTACCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTACCCAGATGTATCGATACACTATAAAA
* *
1526558 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTACCCAGATGTATCGATACACTATAAAA
1526610 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
1526627 ATAAATTTTC
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 66 1.00
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTACCCAGATGTATCGATACACTATAAAA
Found at i:1532500 original size:16 final size:16
Alignment explanation
Indices: 1532479--1532512 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
1532469 TGTACTTTTC
*
1532479 CAAAAAAGAAAGAAAA
1 CAAAAAAGAAAAAAAA
1532495 CAAAAAAGAAAAAAAA
1 CAAAAAAGAAAAAAAA
1532511 CA
1 CA
1532513 CAAACAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.82, C:0.09, G:0.09, T:0.00
Consensus pattern (16 bp):
CAAAAAAGAAAAAAAA
Found at i:1533394 original size:9 final size:8
Alignment explanation
Indices: 1533353--1533398 Score: 65
Period size: 8 Copynumber: 5.6 Consensus size: 8
1533343 TTGTGTTGTA
*
1533353 ATCATGAC
1 ATCATAAC
*
1533361 ATCATGAC
1 ATCATAAC
1533369 ATCATAAC
1 ATCATAAC
1533377 ATCATAAC
1 ATCATAAC
1533385 ATCAATAAC
1 ATC-ATAAC
1533394 ATCAT
1 ATCAT
1533399 TATTTGCATC
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
8 28 0.78
9 8 0.22
ACGTcount: A:0.46, C:0.24, G:0.04, T:0.26
Consensus pattern (8 bp):
ATCATAAC
Found at i:1533528 original size:31 final size:31
Alignment explanation
Indices: 1533492--1533616 Score: 139
Period size: 31 Copynumber: 4.0 Consensus size: 31
1533482 CAATTCTTGA
* *
1533492 AATCTCTTCTCAAAGCCCACGACTCAATGGC
1 AATCTCTTCTCAAAGTCCACGACTCAGTGGC
*
1533523 AATCTCTTCTCAAAGTCCATGACTCAGTGGC
1 AATCTCTTCTCAAAGTCCACGACTCAGTGGC
* * *
1533554 -ATCCTTTTCTTCAAAATCTACGACTCAGTGGC
1 AAT-CTCTTC-TCAAAGTCCACGACTCAGTGGC
*
1533586 -AT-TTTGTCTCAAAGTCCACGACTCAGTGGC
1 AATCTCT-TCTCAAAGTCCACGACTCAGTGGC
1533616 A
1 A
1533617 TTTTTTCTTC
Statistics
Matches: 81, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
30 25 0.31
31 35 0.43
32 21 0.26
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.29
Consensus pattern (31 bp):
AATCTCTTCTCAAAGTCCACGACTCAGTGGC
Found at i:1533579 original size:32 final size:30
Alignment explanation
Indices: 1533508--1533648 Score: 124
Period size: 32 Copynumber: 4.5 Consensus size: 30
1533498 TTCTCAAAGC
* * *
1533508 CCACGACTCAATGGCAATCTCTTC-TCAAAGT
1 CCACGACTCAGTGGC-AT-TTTTCTTCAAAAT
*
1533539 CCATGACTCAGTGGCATCCTTTTCTTCAAAAT
1 CCACGACTCAGTGGCAT--TTTTCTTCAAAAT
* *
1533571 CTACGACTCAGTGGCATTTTGTC-TCAAAGT
1 CCACGACTCAGTGGCATTTT-TCTTCAAAAT
*
1533601 CCACGACTCAGTGGCATTTTTTCTTCAAAAGC
1 CCACGACTCAGTGGCA-TTTTTCTTCAAAA-T
* *
1533633 CCACAACTCCGTGGCA
1 CCACGACTCAGTGGCA
1533649 CCTTGTTCTT
Statistics
Matches: 92, Mismatches: 12, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
30 28 0.30
31 29 0.32
32 35 0.38
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.29
Consensus pattern (30 bp):
CCACGACTCAGTGGCATTTTTCTTCAAAAT
Found at i:1533647 original size:62 final size:62
Alignment explanation
Indices: 1533530--1533648 Score: 168
Period size: 62 Copynumber: 1.9 Consensus size: 62
1533520 GGCAATCTCT
* * * *
1533530 TCTCAAAGTCCATGACTCAGTGGCATCCTTTTCTTCAAAATCTACGACTCAGTGGCATTTTG
1 TCTCAAAGTCCACGACTCAGTGGCATCCTTTTCTTCAAAACCCACAACTCAGTGGCATTTTG
* *
1533592 TCTCAAAGTCCACGACTCAGTGGCAT-TTTTTCTTCAAAAGCCCACAACTCCGTGGCA
1 TCTCAAAGTCCACGACTCAGTGGCATCCTTTTCTTCAAAA-CCCACAACTCAGTGGCA
1533649 CCTTGTTCTT
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
61 12 0.24
62 38 0.76
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.30
Consensus pattern (62 bp):
TCTCAAAGTCCACGACTCAGTGGCATCCTTTTCTTCAAAACCCACAACTCAGTGGCATTTTG
Found at i:1533699 original size:61 final size:63
Alignment explanation
Indices: 1533628--1533744 Score: 175
Period size: 61 Copynumber: 1.9 Consensus size: 63
1533618 TTTTTCTTCA
* * *
1533628 AAAGCCCACAACTCCGTGGC-ACCTTGTTCTTTTTAAA-TCCACAACTCCGTGGCACCCTTTT
1 AAAGCCCACAACTCCATGGCAACCTTGTTCTTTTTAAAGCCCACAACACCGTGGCACCCTTTT
* *
1533689 AAAGCCCACAATTCCATGGCAACCTTTTTCTTTTTAAAGCCCACAACACCGTGGCA
1 AAAGCCCACAACTCCATGGCAACCTTGTTCTTTTTAAAGCCCACAACACCGTGGCA
1533745 TTCTTTTTCC
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
61 18 0.37
62 16 0.33
63 15 0.31
ACGTcount: A:0.26, C:0.33, G:0.13, T:0.27
Consensus pattern (63 bp):
AAAGCCCACAACTCCATGGCAACCTTGTTCTTTTTAAAGCCCACAACACCGTGGCACCCTTTT
Found at i:1533717 original size:95 final size:93
Alignment explanation
Indices: 1533618--1534037 Score: 326
Period size: 95 Copynumber: 4.3 Consensus size: 93
1533608 TCAGTGGCAT
*
1533618 TTTTTCTTCAAAAGCCCACAACTCCGTGGCACCTTGTTCTTTTTAAATCCACAACTCCGTGGCAC
1 TTTTTCTTC-AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAATCCACAACTCCGTGGCAC
**
1533683 CCTTTTAAAGCCCACAATTCCATGGCAAC-C
65 CCTTTT-AAGCCCACAACACCATGGC-ACTC
* * * * * *
1533713 TTTTTCTTTTTAAAGCCCACAACACCGTGGCATTCTTTTTCCTTCTAAGTCCACAACTCCGTGGC
1 TTTTTC--TTCAAAGCCCACAACTCCGTGGCA-CCTTTTTCTTTTTAAATCCACAACTCCGTGGC
* *
1533778 ACCCGTTTAAGCCCACAACACCGTGGCACTC
63 ACCCTTTTAAGCCCACAACACCATGGCACTC
* * * * *
1533809 TTTTTCCTTCTAAGTCCACAACTCCGTGGCACCTTTTTCTTTTCAAAGTCCATAACTCTGTGGCA
1 TTTTT-CTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAA-TCCACAACTCCGTGGCA
* * *** * *
1533874 CTCTTTT--TCCCTTTTACAGTCCATGACTTAGTAGTATC
64 CCCTTTTAAGCCC-ACAACA--CCATG-----GCA--CTC
* * * * * *
1533912 CTTTTCTGCAAAGCCCACAACTACGTGGCA-CTCTTTTCCTTCTAAGTCCACAACTCCGTGGCAC
1 TTTTTCTTCAAAGCCCACAACTCCGTGGCACCT-TTTTCTTTTTAAATCCACAACTCCGTGGCAC
* *
1533976 CCGTTTAAGCCCACAACACCGTGGCACTC
65 CCTTTTAAGCCCACAACACCATGGCACTC
* * *
1534005 TTTTTCCTTCTAAGTCCACAACTCTGTGGCACC
1 TTTTT-CTTCAAAGCCCACAACTCCGTGGCACC
1534038 CGTTTAAGCC
Statistics
Matches: 247, Mismatches: 57, Indels: 42
0.71 0.16 0.12
Matches are distributed among these distances:
93 9 0.04
94 34 0.14
95 51 0.21
96 46 0.19
97 37 0.15
100 4 0.02
101 24 0.10
102 33 0.13
103 9 0.04
ACGTcount: A:0.22, C:0.33, G:0.13, T:0.32
Consensus pattern (93 bp):
TTTTTCTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAATCCACAACTCCGTGGCACC
CTTTTAAGCCCACAACACCATGGCACTC
Found at i:1533741 original size:96 final size:95
Alignment explanation
Indices: 1533617--1534037 Score: 347
Period size: 96 Copynumber: 4.4 Consensus size: 95
1533607 CTCAGTGGCA
* * *
1533617 TTTTTTCTTCAAAAGCCCACAACTCCGTGGCACCTTGTTCTTTTTAAATCCACAACTCCGTGGCA
1 TTTTTCCTTCTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAATCCACAACTCCGTGGCA
**
1533682 CCCTTTTAAAGCCCACAATTCCATGGCAAC-C
66 CCCTTTT-AAGCCCACAACACCATGGC-ACTC
* * * * * * *
1533713 TTTTTCTTTTTAAAGCCCACAACACCGTGGCATTCTTTTTCCTTCTAAGTCCACAACTCCGTGGC
1 TTTTTCCTTCTAAAGCCCACAACTCCGTGGCA-CCTTTTTCTTTTTAAATCCACAACTCCGTGGC
* *
1533778 ACCCGTTTAAGCCCACAACACCGTGGCACTC
65 ACCCTTTTAAGCCCACAACACCATGGCACTC
* * * *
1533809 TTTTTCCTTCT-AAGTCCACAACTCCGTGGCACCTTTTTCTTTTCAAAGTCCATAACTCTGTGGC
1 TTTTTCCTTCTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAA-TCCACAACTCCGTGGC
* * ***
1533873 ACTCTTTT--TCCCTTTTACAGTCCAT-G-ACT-
65 ACCCTTTTAAGCCC-ACAACA--CCATGGCACTC
* * * * *
1533902 TAGTAGTATCCTTTTCTGCAAAGCCCACAACTACGTGGCA-CTCTTTTCCTTCTAAGTCCACAAC
1 T--T--TTTCC--TTCT--AAAGCCCACAACTCCGTGGCACCT-TTTTCTTTTTAAATCCACAAC
* *
1533966 TCCGTGGCACCCGTTTAAGCCCACAACACCGTGGCACTC
57 TCCGTGGCACCCTTTTAAGCCCACAACACCATGGCACTC
* *
1534005 TTTTTCCTTCT-AAGTCCACAACTCTGTGGCACC
1 TTTTTCCTTCTAAAGCCCACAACTCCGTGGCACC
1534038 CGTTTAAGCC
Statistics
Matches: 251, Mismatches: 52, Indels: 45
0.72 0.15 0.13
Matches are distributed among these distances:
93 4 0.02
94 34 0.14
95 43 0.17
96 56 0.22
97 42 0.17
99 8 0.03
100 3 0.01
101 24 0.10
102 33 0.13
103 4 0.02
ACGTcount: A:0.22, C:0.33, G:0.13, T:0.32
Consensus pattern (95 bp):
TTTTTCCTTCTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAATCCACAACTCCGTGGCA
CCCTTTTAAGCCCACAACACCATGGCACTC
Found at i:1533798 original size:61 final size:61
Alignment explanation
Indices: 1533725--1534098 Score: 428
Period size: 61 Copynumber: 5.9 Consensus size: 61
1533715 TTTCTTTTTA
*
1533725 AAGCCCACAACACCGTGGCATTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCCGTTT
1 AAGCCCACAACACCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCCGTTT
*
1533786 AAGCCCACAACACCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCTTTTTCTTT
1 AAGCCCACAACACCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACC-----CGTT
1533851 T
61 T
* * * * * ** ** * * **
1533852 CAAAGTCCATAACTCTGTGGCACTCTTTTTCCCTTTTACAGTCCATGACTTAGTAGTATCCTTTT
1 --AAGCCCACAACACCGTGGCACTCTTTTT-CCTTCTA-AGTCCACAACTCCGTGGCA-CCCGTT
1533917 CT
61 -T
1533919 GCAAAGCCCACAACTA-CGTGGCACTC-TTTTCCTTCTAAGTCCACAACTCCGTGGCACCCGTTT
1 ---AAGCCCACAAC-ACCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCCGTTT
*
1533982 AAGCCCACAACACCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCTGTGGCACCCGTTT
1 AAGCCCACAACACCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCCGTTT
* * *
1534043 AAGCCCACAACTCCGTGGCACTCTTTTTCTTTCAAAGTCCACAACTCCGTGGCACC
1 AAGCCCACAACACCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACC
1534099 TTCTTTTCAA
Statistics
Matches: 266, Mismatches: 32, Indels: 30
0.81 0.10 0.09
Matches are distributed among these distances:
59 1 0.00
60 21 0.08
61 143 0.54
63 1 0.00
64 4 0.02
65 13 0.05
66 13 0.05
67 5 0.02
68 44 0.17
69 6 0.02
70 13 0.05
71 2 0.01
ACGTcount: A:0.21, C:0.34, G:0.14, T:0.30
Consensus pattern (61 bp):
AAGCCCACAACACCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCCGTTT
Found at i:1533992 original size:27 final size:27
Alignment explanation
Indices: 1533954--1534063 Score: 112
Period size: 27 Copynumber: 3.8 Consensus size: 27
1533944 CTTTTCCTTC
*
1533954 TAAGTCCACAACTCCGTGGCACCCGTT
1 TAAGCCCACAACTCCGTGGCACCCGTT
* *
1533981 TAAGCCCACAACACCGTGGCACTCTTTTTCCTT
1 TAAGCCCACAACTCCGTGGCAC-C-----CGTT
* *
1534014 CTAAGTCCACAACTCTGTGGCACCCGTT
1 -TAAGCCCACAACTCCGTGGCACCCGTT
1534042 TAAGCCCACAACTCCGTGGCAC
1 TAAGCCCACAACTCCGTGGCAC
1534064 TCTTTTTCTT
Statistics
Matches: 67, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
27 40 0.60
28 4 0.06
33 4 0.06
34 19 0.28
ACGTcount: A:0.23, C:0.37, G:0.16, T:0.24
Consensus pattern (27 bp):
TAAGCCCACAACTCCGTGGCACCCGTT
Found at i:1534128 original size:33 final size:33
Alignment explanation
Indices: 1534082--1534208 Score: 160
Period size: 32 Copynumber: 4.0 Consensus size: 33
1534072 TTTCAAAGTC
* * *
1534082 CACAACTCCGTGGC-ACCTTCTTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACC-TCTTCTCAAAGCCCA
1534115 CACAAGTCGGTGGCAACC-CTTCTCAAAGCCCA
1 CACAAGTCGGTGGCAACCTCTTCTCAAAGCCCA
1534147 CACAAGTCGGTGGCAACC-C-TCTCTAAAGCCCA
1 CACAAGTCGGTGGCAACCTCTTCTC-AAAGCCCA
1534179 CACAAGTCGGTGGCAACC-CTTCT--AAGCCCA
1 CACAAGTCGGTGGCAACCTCTTCTCAAAGCCCA
1534209 ATATAGCTGG
Statistics
Matches: 88, Mismatches: 3, Indels: 9
0.88 0.03 0.09
Matches are distributed among these distances:
30 7 0.08
31 4 0.05
32 59 0.67
33 15 0.17
34 3 0.03
ACGTcount: A:0.27, C:0.38, G:0.17, T:0.18
Consensus pattern (33 bp):
CACAAGTCGGTGGCAACCTCTTCTCAAAGCCCA
Found at i:1534146 original size:32 final size:32
Alignment explanation
Indices: 1534105--1534208 Score: 178
Period size: 32 Copynumber: 3.3 Consensus size: 32
1534095 CACCTTCTTT
1534105 TCAAAGCCCACACAAGTCGGTGGCAACCCTTC
1 TCAAAGCCCACACAAGTCGGTGGCAACCCTTC
1534137 TCAAAGCCCACACAAGTCGGTGGCAACCC-TC
1 TCAAAGCCCACACAAGTCGGTGGCAACCCTTC
1534168 TCTAAAGCCCACACAAGTCGGTGGCAACCCTTC
1 TC-AAAGCCCACACAAGTCGGTGGCAACCCTTC
1534201 T--AAGCCCA
1 TCAAAGCCCA
1534209 ATATAGCTGG
Statistics
Matches: 70, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
30 7 0.10
31 4 0.06
32 56 0.80
33 3 0.04
ACGTcount: A:0.29, C:0.38, G:0.18, T:0.15
Consensus pattern (32 bp):
TCAAAGCCCACACAAGTCGGTGGCAACCCTTC
Found at i:1534442 original size:43 final size:43
Alignment explanation
Indices: 1534381--1535430 Score: 789
Period size: 43 Copynumber: 23.0 Consensus size: 43
1534371 ACCTTCATCA
*
1534381 TTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCT
1 TTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCT
* * *
1534424 TTAAGTCCAATATCGCTGGCCTTGTATCAGCATATTGGCATCTTCATCT
1 TTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA----C--CT
* * *
1534473 TTAAATCCAATGTAGCTGGCCTTGAATCATCACATTGGCACCT
1 TTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCT
* ** *
1534516 TTAAGTCTAATACCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCT
1 TTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA----C--CT
* *
1534565 TTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGTACCT
1 TTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCT
* * *
1534608 TTAAGTCCAATATCGCTGGCCTTGTATCAGCATATTGGCATCTTCATCT
1 TTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA----C--CT
*
1534657 TTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCT
1 TTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCT
* * *
1534700 TTAAGTCCAATATCGCTGGCCTTGAATTAGCATATTGGCACCTTTTTCT
1 TTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-C-----CT
* * *
1534749 TTAAGTCCAATGTAGCTGGCCCTGAATCAGCACATTGACACCT
1 TTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCT
*
1534792 TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCT
1 TTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-------C--CT
* *
1534844 TTAAGTTCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCATCT
1 TTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA----------C--CT
* * * * *
1534899 TTAAG-CCTAATATCGTTGGCCGTGAATCAACATATT-G-A--T
1 TTAAGTCC-AATATAGCTGGCCTTGAATCAGCACATTGGCACCT
* * * * * ** * *
1534938 GT-AG--C----TGGCCTTGACTCAGCACATTGGCACCTT--CATCT
1 TTAAGTCCAATATAG-CTGGCCT-TG-A-ATCAGCACATTGGCACCT
*
1534976 TTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCT
1 TTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCT
* * *
1535019 TTAAGTCCAATATCGCTGGCCTTGTATCAGCATATTGGCATCTTCATCT
1 TTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA----C--CT
*
1535068 TTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCT
1 TTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCT
* * * *
1535111 TTGAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGAACCTTCATCT
1 TTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG------CACCT
*
1535160 TTAAGTCCAATGTAGC-GGCCTTGAATCAGCACATTGGCACCT
1 TTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCT
* * *
1535202 TTAAGTCCAATATCGCTGGCCTTGTATCAGCATATTGGCATCTTCATCT
1 TTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA----C--CT
*
1535251 TTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCT
1 TTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCT
* *
1535294 TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCT
1 TTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-C-----CT
* * *
1535343 TTAAGTCCAATGTAGCTAGCCTTGAATCAGCACATTGACACCT
1 TTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCT
*
1535386 TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCT
1 TTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCT
1535429 TT
1 TT
1535431 TCCATCTTTA
Statistics
Matches: 810, Mismatches: 119, Indels: 156
0.75 0.11 0.14
Matches are distributed among these distances:
32 2 0.00
33 3 0.00
34 1 0.00
35 1 0.00
36 7 0.01
37 1 0.00
38 4 0.00
39 4 0.00
41 9 0.01
42 19 0.02
43 364 0.45
44 7 0.01
45 7 0.01
47 5 0.01
48 22 0.03
49 276 0.34
50 1 0.00
52 39 0.05
53 1 0.00
54 1 0.00
55 36 0.04
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (43 bp):
TTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCT
Found at i:1534507 original size:92 final size:92
Alignment explanation
Indices: 1534346--1534889 Score: 863
Period size: 92 Copynumber: 5.9 Consensus size: 92
1534336 TATTGATGTA
* * *
1534346 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCATTAAGTCCAATGTAGCTGGCCTTGAATCAG
1 GCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAG
1534411 CACATTGGCACCTTTAAGTCCAATATC
66 CACATTGGCACCTTTAAGTCCAATATC
* * * *
1534438 GCTGGCCTTGTATCAGCATATTGGCATCTTCATCTTTAAATCCAATGTAGCTGGCCTTGAATCAT
1 GCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAG
* *
1534503 CACATTGGCACCTTTAAGTCTAATACC
66 CACATTGGCACCTTTAAGTCCAATATC
1534530 GCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAG
1 GCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAG
*
1534595 CACATTGGTACCTTTAAGTCCAATATC
66 CACATTGGCACCTTTAAGTCCAATATC
* *
1534622 GCTGGCCTTGTATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAG
1 GCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAG
1534687 CACATTGGCACCTTTAAGTCCAATATC
66 CACATTGGCACCTTTAAGTCCAATATC
* ** *
1534714 GCTGGCCTTGAATTAGCATATTGGCACCTTTTTCTTTAAGTCCAATGTAGCTGGCCCTGAATCAG
1 GCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAG
* *
1534779 CACATTGACACCTTTAAGTCCAATATA
66 CACATTGGCACCTTTAAGTCCAATATC
* *
1534806 GCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAATATAGCTGGCCTTGAAT
1 GCTGGCCTTGAATCAGCATATTGGCACC--TT-CATCTTTAAGTCCAATGTAGCTGGCCTTGAAT
*
1534871 CAGCACATTGACATCCTTT
63 CAGCACATTGGCA-CCTTT
1534890 TTCTCATCTT
Statistics
Matches: 415, Mismatches: 33, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
92 368 0.89
94 2 0.00
95 40 0.10
96 5 0.01
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (92 bp):
GCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAG
CACATTGGCACCTTTAAGTCCAATATC
Found at i:1534868 original size:52 final size:55
Alignment explanation
Indices: 1534790--1534936 Score: 194
Period size: 52 Copynumber: 2.7 Consensus size: 55
1534780 ACATTGACAC
*
1534790 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC-TTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACATCCTTTTTCTCAT
* *
1534842 CTTTAAGTTCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACATCCTTTTTCTCAT
* * * *
1534897 CTTTAAG-CCTAATATCGTTGGCCGTGAATCAACATATTGA
1 CTTTAAGTCC-AATATAGCTGGCCTTGAATCAGCATATTGA
1534937 TGTAGCTGGC
Statistics
Matches: 82, Mismatches: 9, Indels: 5
0.85 0.09 0.05
Matches are distributed among these distances:
52 39 0.48
53 2 0.02
54 6 0.07
55 35 0.43
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (55 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACATCCTTTTTCTCAT
Found at i:1534974 original size:319 final size:314
Alignment explanation
Indices: 1534622--1535203 Score: 968
Period size: 319 Copynumber: 1.8 Consensus size: 314
1534612 GTCCAATATC
* *
1534622 GCTGGCCTTGTATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAG
1 GCTGGCCTTGTATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAG
* **
1534687 CACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATTAGCATATTGGCACCTTTTTCTTTA
66 CACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTA
1534752 AGTCCAATGTAGCTGGCCCTGAATCAGCACATTGACACCTTTAAGTCCAATATAGCTGGCCTTGA
131 AGTCCAATGTAGCTGGCCCTGAATCAGCACATTGACACCTTTAAGTCCAATATAGCTGGCCTTGA
* *
1534817 ATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAATATAGCTGGCCTTGAATCAGCACATTGA
196 ATCAGCATATTGGAACC--TT-CATCTTTAAGTCCAATATAGC-GGCCTTGAATCAGCACATTGA
1534882 CATCCTTTTTCTCATCTTTAAGCCTAATATCGTTGGCCGTGAATCAACATATTGATGTA
257 CA-CCTTTTTCTCATCTTTAAGCCTAATATCGTTGGCCGTGAATCAACATATTGATGTA
1534941 GCTGGCCTTG-ACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCA
1 GCTGGCCTTGTA-TCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCA
* *
1535005 GCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGTATCAGCATATTGGCATCTTCATCTTT
65 GCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTT
* * * *
1535070 AAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTGAGTCCAATATCGCTGGCCTTG
130 AAGTCCAATGTAGCTGGCCCTGAATCAGCACATTGACACCTTTAAGTCCAATATAGCTGGCCTTG
* *
1535135 AATCAGCATATTGGAACCTTCATCTTTAAGTCCAATGTAGCGGCCTTGAATCAGCACATTGGCAC
195 AATCAGCATATTGGAACCTTCATCTTTAAGTCCAATATAGCGGCCTTGAATCAGCACATTGACAC
1535200 CTTT
260 CTTT
1535204 AAGTCCAATA
Statistics
Matches: 247, Mismatches: 15, Indels: 7
0.92 0.06 0.03
Matches are distributed among these distances:
314 5 0.02
315 22 0.09
316 19 0.08
317 2 0.01
318 1 0.00
319 198 0.80
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.32
Consensus pattern (314 bp):
GCTGGCCTTGTATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAG
CACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTA
AGTCCAATGTAGCTGGCCCTGAATCAGCACATTGACACCTTTAAGTCCAATATAGCTGGCCTTGA
ATCAGCATATTGGAACCTTCATCTTTAAGTCCAATATAGCGGCCTTGAATCAGCACATTGACACC
TTTTTCTCATCTTTAAGCCTAATATCGTTGGCCGTGAATCAACATATTGATGTA
Found at i:1535098 original size:92 final size:92
Alignment explanation
Indices: 1534941--1535483 Score: 908
Period size: 92 Copynumber: 5.9 Consensus size: 92
1534931 TATTGATGTA
* *
1534941 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAG
1 GCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAG
1535006 CACATTGGCACCTTTAAGTCCAATATC
66 CACATTGGCACCTTTAAGTCCAATATC
* *
1535033 GCTGGCCTTGTATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAG
1 GCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAG
*
1535098 CACATTGGCACCTTTGAGTCCAATATC
66 CACATTGGCACCTTTAAGTCCAATATC
*
1535125 GCTGGCCTTGAATCAGCATATTGGAACCTTCATCTTTAAGTCCAATGTAGC-GGCCTTGAATCAG
1 GCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAG
1535189 CACATTGGCACCTTTAAGTCCAATATC
66 CACATTGGCACCTTTAAGTCCAATATC
* *
1535216 GCTGGCCTTGTATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAG
1 GCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAG
1535281 CACATTGGCACCTTTAAGTCCAATATC
66 CACATTGGCACCTTTAAGTCCAATATC
** *
1535308 GCTGGCCTTGAATCAGCATATTGGCACCTTTTTCTTTAAGTCCAATGTAGCTAGCCTTGAATCAG
1 GCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAG
* *
1535373 CACATTGACACCTTTAAGTCCAATATA
66 CACATTGGCACCTTTAAGTCCAATATC
*
1535400 GCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGAAT
1 GCTGGCCTTGAATCAGCATATTGGCACC--TT-CATCTTTAAGTCCAATGTAGCTGGCCTTGAAT
*
1535465 CAGCACATTGACATCCTTT
63 CAGCACATTGGCA-CCTTT
1535484 TTCTCATCTT
Statistics
Matches: 423, Mismatches: 23, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
91 87 0.21
92 288 0.68
94 2 0.00
95 41 0.10
96 5 0.01
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.32
Consensus pattern (92 bp):
GCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAG
CACATTGGCACCTTTAAGTCCAATATC
Found at i:1535462 original size:52 final size:53
Alignment explanation
Indices: 1535384--1535537 Score: 186
Period size: 52 Copynumber: 2.9 Consensus size: 53
1535374 ACATTGACAC
1535384 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAT
* * * *
1535436 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC-TTTTCTCAT
* * * * *
1535491 CTTTAAG-CCTAATATCGTTGGCCGTGAATCAACATATTGGCATCTTT
1 CTTTAAGTCC-AATATAGCTGGCCTTGAATCAGCATATTGGCACCTTT
1535538 ATCACTTTTC
Statistics
Matches: 85, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
52 38 0.45
53 5 0.06
54 7 0.08
55 35 0.41
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (53 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAT
Found at i:1536405 original size:13 final size:13
Alignment explanation
Indices: 1536387--1536411 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1536377 CATAAAGTGT
1536387 TGTATCGATACAA
1 TGTATCGATACAA
1536400 TGTATCGATACA
1 TGTATCGATACA
1536412 TTTTTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1536491 original size:13 final size:13
Alignment explanation
Indices: 1536473--1536497 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1536463 ATTATTCAAA
1536473 TGTATCGATACAT
1 TGTATCGATACAT
1536486 TGTATCGATACA
1 TGTATCGATACA
1536498 CTGATATTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1536634 original size:52 final size:52
Alignment explanation
Indices: 1536486--1536626 Score: 230
Period size: 52 Copynumber: 2.7 Consensus size: 52
1536476 ATCGATACAT
**
1536486 TGTATCGATACACTGA-TATTTGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACT-ATTAAATGTATCGATACATGCAGGCAAATTTGCCCAGA
* *
1536538 TGTATCGATACATTATAAAATGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACTATTAAATGTATCGATACATGCAGGCAAATTTGCCCAGA
1536590 TGTATCGATACACTATTAAATGTATCGATACATGCAG
1 TGTATCGATACACTATTAAATGTATCGATACATGCAG
1536627 ATAAATTTTC
Statistics
Matches: 82, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
51 1 0.01
52 81 0.99
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (52 bp):
TGTATCGATACACTATTAAATGTATCGATACATGCAGGCAAATTTGCCCAGA
Found at i:1537424 original size:9 final size:9
Alignment explanation
Indices: 1537410--1537436 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
1537400 AGGATTATTG
1537410 TGATGATTT
1 TGATGATTT
1537419 TGATGATTT
1 TGATGATTT
1537428 TGATGATTT
1 TGATGATTT
1537437 GAAGTCACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.22, T:0.56
Consensus pattern (9 bp):
TGATGATTT
Found at i:1539897 original size:27 final size:27
Alignment explanation
Indices: 1539867--1539934 Score: 127
Period size: 27 Copynumber: 2.5 Consensus size: 27
1539857 CACGGAATTA
1539867 TGGACTTAAAAGGGTGCCATGGAGTTG
1 TGGACTTAAAAGGGTGCCATGGAGTTG
*
1539894 TGGACTTAAAAGAGTGCCATGGAGTTG
1 TGGACTTAAAAGGGTGCCATGGAGTTG
1539921 TGGACTTAAAAGGG
1 TGGACTTAAAAGGG
1539935 AAAAAGAGTG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.29, C:0.10, G:0.35, T:0.25
Consensus pattern (27 bp):
TGGACTTAAAAGGGTGCCATGGAGTTG
Found at i:1539986 original size:34 final size:35
Alignment explanation
Indices: 1539901--1540134 Score: 158
Period size: 34 Copynumber: 7.0 Consensus size: 35
1539891 TTGTGGACTT
* *
1539901 AAAAGAGTGCCATGGAGTTGTGGACTTAAAAGGGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGAGA
* *
1539936 AAAAGAGTGCCGCGGAGTTGTGGGCTTTAAAA-AGA
1 AAAAGAGTGCCACGGAGTTGTGGAC-TTAAAAGAGA
*
1539971 AAAAG-GTGCCACGGAGTCGTGGACTT---AGA-A
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGAGA
* * * * *
1540001 AAGAGA-TGCCACTGAATTGTAGACTT-ACAG-GA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGAGA
* * **
1540033 AAAAGGGATGCCACTGAGTTGTGGACTTTGAAG-G-
1 AAAAGAG-TGCCACGGAGTTGTGGACTTAAAAGAGA
*
1540067 -AAAGAGTTGCCACGGAGTTGTGGACTT-TAA-AG-
1 AAAAGAG-TGCCACGGAGTTGTGGACTTAAAAGAGA
* *
1540099 AAAAGA-TGCCACTGAGTCGTGGACTTTGAAAAGAGA
1 AAAAGAGTGCCACGGAGTTGTGGAC-TT-AAAAGAGA
1540135 TTGCCACTGA
Statistics
Matches: 158, Mismatches: 25, Indels: 31
0.74 0.12 0.14
Matches are distributed among these distances:
30 22 0.14
31 17 0.11
32 12 0.08
33 31 0.20
34 36 0.23
35 34 0.22
36 6 0.04
ACGTcount: A:0.35, C:0.13, G:0.32, T:0.21
Consensus pattern (35 bp):
AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGAGA
Found at i:1540121 original size:31 final size:31
Alignment explanation
Indices: 1539901--1540187 Score: 197
Period size: 31 Copynumber: 8.9 Consensus size: 31
1539891 TTGTGGACTT
*
1539901 AAAAGAGTGCCA-TGGAGTTGTGGACTTAAAAGGG
1 AAAAGA-TGCCACT-GAGTTGTGGACTTTAAA--G
* * *
1539935 AAAAAGAGTGCCGCGGAGTTGTGGGCTTTAAAAAG
1 -AAAAGA-TGCCACTGAGTTGTGGACTTT--AAAG
* * *
1539970 AAAAAGGTGCCACGGAGTCGTGGAC-TTAGAA-
1 -AAAAGATGCCACTGAGTTGTGGACTTTA-AAG
* * * *
1540001 AAGAGATGCCACTGAATTGTAGAC-TTACAGG
1 AAAAGATGCCACTGAGTTGTGGACTTTA-AAG
*
1540032 AAAAAGGGATGCCACTGAGTTGTGGACTTTGAAGG
1 -AAAA--GATGCCACTGAGTTGTGGACTTT-AAAG
* *
1540067 AAAGAGTTGCCACGGAGTTGTGGACTTTAAAG
1 AAA-AGATGCCACTGAGTTGTGGACTTTAAAG
* *
1540099 AAAAGATGCCACTGAGTCGTGGACTTTGAA-
1 AAAAGATGCCACTGAGTTGTGGACTTTAAAG
* **
1540129 AAGAGATTGCCACTGAGTTGTGGACTTTGGAG
1 AAAAGA-TGCCACTGAGTTGTGGACTTTAAAG
* *
1540161 AAAAAATGCCACTGAGTCGTGGACTTT
1 AAAAGATGCCACTGAGTTGTGGACTTT
1540188 GGAGAAAATA
Statistics
Matches: 207, Mismatches: 32, Indels: 30
0.77 0.12 0.11
Matches are distributed among these distances:
30 27 0.13
31 66 0.32
32 15 0.07
33 23 0.11
34 36 0.17
35 36 0.17
36 1 0.00
37 3 0.01
ACGTcount: A:0.33, C:0.14, G:0.31, T:0.23
Consensus pattern (31 bp):
AAAAGATGCCACTGAGTTGTGGACTTTAAAG
Found at i:1540187 original size:62 final size:62
Alignment explanation
Indices: 1539968--1540188 Score: 241
Period size: 62 Copynumber: 3.5 Consensus size: 62
1539958 GGCTTTAAAA
* * * * * *
1539968 AGAAAAAGGTGCCACGGAGTCGTGGACTTAGAAAAGAGA-TGCCACTGAATTGTAGACTTACAGG
1 AGAAAAA-ATGCCACTGAGTCGTGGACTTTGAAAAGAGATTGCCACTGAGTTGTGGACTT--TGG
* * *
1540032 A-AAAAGGGATGCCACTGAGTTGTGGACTTTGAAGGAA-AGAGTTGCCACGGAGTTGTGGACTTT
1 AGAAAA--AATGCCACTGAGTCGTGGACTTTGAA--AAGAGA-TTGCCACTGAGTTGTGGACTTT
**
1540095 AA
61 GG
*
1540097 AGAAAAGATGCCACTGAGTCGTGGACTTTGAAAAGAGATTGCCACTGAGTTGTGGACTTTGG
1 AGAAAAAATGCCACTGAGTCGTGGACTTTGAAAAGAGATTGCCACTGAGTTGTGGACTTTGG
1540159 AGAAAAAATGCCACTGAGTCGTGGACTTTG
1 AGAAAAAATGCCACTGAGTCGTGGACTTTG
1540189 GAGAAAATAG
Statistics
Matches: 133, Mismatches: 16, Indels: 18
0.80 0.10 0.11
Matches are distributed among these distances:
62 52 0.39
63 7 0.05
64 47 0.35
65 4 0.03
66 6 0.05
67 17 0.13
ACGTcount: A:0.32, C:0.14, G:0.30, T:0.23
Consensus pattern (62 bp):
AGAAAAAATGCCACTGAGTCGTGGACTTTGAAAAGAGATTGCCACTGAGTTGTGGACTTTGG
Found at i:1541869 original size:15 final size:15
Alignment explanation
Indices: 1541831--1541870 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
1541821 AGAATACAAA
1541831 AAAAAAAAAAGAAAG
1 AAAAAAAAAAGAAAG
* * *
1541846 AATACAAAAAGAGAG
1 AAAAAAAAAAGAAAG
1541861 AAAAAAAAAA
1 AAAAAAAAAA
1541871 CCAGTATTTG
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.82, C:0.03, G:0.12, T:0.03
Consensus pattern (15 bp):
AAAAAAAAAAGAAAG
Found at i:1542639 original size:12 final size:11
Alignment explanation
Indices: 1542617--1542692 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
1542607 AGAGAAAGAA
*
1542617 GAGAGAGGAGG
1 GAGATAGGAGG
1542628 GATGATAGGAGG
1 GA-GATAGGAGG
*
1542640 AGAGACAGGA--
1 -GAGATAGGAGG
*
1542650 GAGATAGTA--
1 GAGATAGGAGG
1542659 GAGATAGGAGG
1 GAGATAGGAGG
1542670 GATGATAGGAGG
1 GA-GATAGGAGG
*
1542682 AGAGACAGGAG
1 -GAGATAGGAG
1542693 AGATAATAGA
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 4 0.08
12 30 0.57
13 4 0.08
ACGTcount: A:0.39, C:0.03, G:0.49, T:0.09
Consensus pattern (11 bp):
GAGATAGGAGG
Found at i:1542649 original size:24 final size:24
Alignment explanation
Indices: 1542616--1542701 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
1542606 AAGAGAAAGA
*
1542616 AGAGAGAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
*
1542640 AGAGACAGGA--GA-GAT---AGT
1 AGAGACAGGAGGGATGATAGGAGG
*
1542658 AGAGATAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
* *
1542682 AGAGACAGGAGAGATAATAG
1 AGAGACAGGAGGGATGATAG
1542702 AGAGAGGAGG
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 11 0.22
20 2 0.04
21 6 0.12
22 2 0.04
24 28 0.57
ACGTcount: A:0.42, C:0.02, G:0.45, T:0.10
Consensus pattern (24 bp):
AGAGACAGGAGGGATGATAGGAGG
Found at i:1542668 original size:42 final size:42
Alignment explanation
Indices: 1542607--1542725 Score: 184
Period size: 42 Copynumber: 2.8 Consensus size: 42
1542597 TAGCCCTCAA
* *
1542607 AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
*
1542649 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
* * *
1542691 AGAGATAATAGAGAGAGGAGGGATGACAGAAGGAG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAG
1542726 GAGAGAAGAA
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 70 1.00
ACGTcount: A:0.44, C:0.03, G:0.45, T:0.08
Consensus pattern (42 bp):
AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
Found at i:1554313 original size:52 final size:52
Alignment explanation
Indices: 1554166--1554294 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
1554156 CCGAATATGA
*
1554166 AAATTTACCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGAGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGAGC
* * *
1554218 AAATTTGCCTGTATGTATCGATACATTTCATAGTGTATCGATACCTCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGAGC
1554270 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
1554295 AAGATCAATG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGAGC
Found at i:1554318 original size:13 final size:13
Alignment explanation
Indices: 1554300--1554326 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1554290 ATACAAAGAT
1554300 CAATGTATCGATA
1 CAATGTATCGATA
1554313 CAATGTATCGATA
1 CAATGTATCGATA
1554326 C
1 C
1554327 GTTTGAGTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.30
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:1554388 original size:13 final size:13
Alignment explanation
Indices: 1554366--1554455 Score: 63
Period size: 13 Copynumber: 6.0 Consensus size: 13
1554356 GGCAGTAGCT
*
1554366 TTGTAACGATACA
1 TTGTATCGATACA
1554379 TTGTATCGATACAACA
1 TTGTATCGAT---ACA
1554395 CTTATGTATCGATACA
1 --T-TGTATCGATACA
1554411 TTGTATCGATACAACA
1 TTGTATCGAT---ACA
1554427 CTTATGTATCGATACA
1 --T-TGTATCGATACA
1554443 TTGTATCGATACA
1 TTGTATCGATACA
1554456 AATCATTGAA
Statistics
Matches: 64, Mismatches: 1, Indels: 24
0.72 0.01 0.27
Matches are distributed among these distances:
13 30 0.47
14 2 0.03
16 12 0.19
18 2 0.03
19 18 0.28
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.34
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1554404 original size:19 final size:19
Alignment explanation
Indices: 1554380--1554442 Score: 84
Period size: 19 Copynumber: 3.6 Consensus size: 19
1554370 AACGATACAT
1554380 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
1554399 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
1554412 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
1554431 TGTATCGATACA
1 TGTATCGATACA
1554443 TTGTATCGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 9 0.24
14 1 0.03
16 6 0.16
18 1 0.03
19 21 0.55
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.33
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:1554413 original size:32 final size:32
Alignment explanation
Indices: 1554367--1554456 Score: 171
Period size: 32 Copynumber: 2.8 Consensus size: 32
1554357 GCAGTAGCTT
*
1554367 TGTAACGATACATTGTATCGATACAACACTTA
1 TGTATCGATACATTGTATCGATACAACACTTA
1554399 TGTATCGATACATTGTATCGATACAACACTTA
1 TGTATCGATACATTGTATCGATACAACACTTA
1554431 TGTATCGATACATTGTATCGATACAA
1 TGTATCGATACATTGTATCGATACAA
1554457 ATCATTGAAA
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 57 1.00
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (32 bp):
TGTATCGATACATTGTATCGATACAACACTTA
Found at i:1555162 original size:44 final size:44
Alignment explanation
Indices: 1555112--1555201 Score: 180
Period size: 44 Copynumber: 2.0 Consensus size: 44
1555102 TTTTTTTCTA
1555112 CACCAAGGTACATCAATAATTGATTTCGATTCAATGATAAGACC
1 CACCAAGGTACATCAATAATTGATTTCGATTCAATGATAAGACC
1555156 CACCAAGGTACATCAATAATTGATTTCGATTCAATGATAAGACC
1 CACCAAGGTACATCAATAATTGATTTCGATTCAATGATAAGACC
1555200 CA
1 CA
1555202 ACTCCATTTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.39, C:0.21, G:0.13, T:0.27
Consensus pattern (44 bp):
CACCAAGGTACATCAATAATTGATTTCGATTCAATGATAAGACC
Found at i:1555497 original size:14 final size:14
Alignment explanation
Indices: 1555473--1555540 Score: 58
Period size: 14 Copynumber: 5.1 Consensus size: 14
1555463 AAATTTGATA
*
1555473 ATTATAGATATAAT
1 ATTATAAATATAAT
1555487 -TATATAAATATAAT
1 AT-TATAAATATAAT
1555501 ATTATAAA-ATAA-
1 ATTATAAATATAAT
1555513 A--A-AAATATAAT
1 ATTATAAATATAAT
*
1555524 ATTATATAATATTAT
1 ATTATA-AATATAAT
1555539 AT
1 AT
1555541 AATATTATTT
Statistics
Matches: 44, Mismatches: 2, Indels: 15
0.72 0.03 0.25
Matches are distributed among these distances:
9 3 0.07
10 5 0.11
11 1 0.02
12 1 0.02
13 6 0.14
14 18 0.41
15 10 0.23
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.41
Consensus pattern (14 bp):
ATTATAAATATAAT
Found at i:1555524 original size:5 final size:5
Alignment explanation
Indices: 1555470--1555545 Score: 52
Period size: 5 Copynumber: 15.4 Consensus size: 5
1555460 GTCAAATTTG
* *
1555470 ATAATT ATAGAT ATAAT -T-AT ATAAAT ATAAT AT--T ATAAA ATAAA
1 ATAA-T ATA-AT ATAAT ATAAT AT-AAT ATAAT ATAAT ATAAT ATAAT
* * *
1555514 AAAAT ATAAT ATTAT ATAAT ATTAT ATAAT AT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT AT
1555546 TATTTATATT
Statistics
Matches: 56, Mismatches: 8, Indels: 13
0.73 0.10 0.17
Matches are distributed among these distances:
3 5 0.09
4 2 0.04
5 37 0.66
6 11 0.20
7 1 0.02
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (5 bp):
ATAAT
Found at i:1555530 original size:10 final size:10
Alignment explanation
Indices: 1555517--1555548 Score: 64
Period size: 10 Copynumber: 3.2 Consensus size: 10
1555507 AAATAAAAAA
1555517 ATATAATATT
1 ATATAATATT
1555527 ATATAATATT
1 ATATAATATT
1555537 ATATAATATT
1 ATATAATATT
1555547 AT
1 AT
1555549 TTATATTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (10 bp):
ATATAATATT
Found at i:1563421 original size:18 final size:19
Alignment explanation
Indices: 1563381--1563421 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
1563371 AAATTTATAA
* *
1563381 ATAAAAACTTTAATTTTAT
1 ATAAAAAATTTAATGTTAT
1563400 -TAAAAAATTT-ATGTTAT
1 ATAAAAAATTTAATGTTAT
1563417 ATAAA
1 ATAAA
1563422 TTTATTTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (19 bp):
ATAAAAAATTTAATGTTAT
Found at i:1563424 original size:15 final size:16
Alignment explanation
Indices: 1563404--1563438 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
1563394 TTTTATTAAA
1563404 AAATTTATGTTAT-AT
1 AAATTTATGTTATAAT
*
1563419 AAATTTATTTTATAAT
1 AAATTTATGTTATAAT
1563435 AAAT
1 AAAT
1563439 AAAAAATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (16 bp):
AAATTTATGTTATAAT
Found at i:1564308 original size:14 final size:15
Alignment explanation
Indices: 1564279--1564308 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1564269 TCAAATTTAA
1564279 TTTAAAATAAAATTT
1 TTTAAAATAAAATTT
1564294 TTTAAAAT-AAATTT
1 TTTAAAATAAAATTT
1564308 T
1 T
1564309 CTGATTCGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TTTAAAATAAAATTT
Found at i:1566502 original size:9 final size:9
Alignment explanation
Indices: 1566490--1566529 Score: 53
Period size: 9 Copynumber: 4.2 Consensus size: 9
1566480 TTTGTATTTT
1566490 TTATATAAA
1 TTATATAAA
1566499 TTATATATAA
1 TTATATA-AA
1566509 TGTATATAAA
1 T-TATATAAA
*
1566519 TTATTTAAA
1 TTATATAAA
1566528 TT
1 TT
1566530 TCTTTAAAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 16 0.57
10 6 0.21
11 6 0.21
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (9 bp):
TTATATAAA
Found at i:1568293 original size:19 final size:19
Alignment explanation
Indices: 1568265--1568301 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
1568255 ATTTCCCAAT
1568265 TTTAGCACCAAGGTATCAA
1 TTTAGCACCAAGGTATCAA
*
1568284 TTTAGTACCAAGGTATCA
1 TTTAGCACCAAGGTATCA
1568302 GTACGCATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (19 bp):
TTTAGCACCAAGGTATCAA
Found at i:1569290 original size:17 final size:17
Alignment explanation
Indices: 1569268--1569317 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
1569258 TTGAAATAAG
* *
1569268 GTAAAGTAAATAACAAT
1 GTAAAGTAAATAAAAAC
1569285 GTAAAGTAAATAGAAAAC
1 GTAAAGTAAATA-AAAAC
*
1569303 ATAAAGTAAATAAAA
1 GTAAAGTAAATAAAA
1569318 TAAAAATAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
17 15 0.52
18 14 0.48
ACGTcount: A:0.64, C:0.04, G:0.12, T:0.20
Consensus pattern (17 bp):
GTAAAGTAAATAAAAAC
Found at i:1569360 original size:36 final size:35
Alignment explanation
Indices: 1569300--1569395 Score: 120
Period size: 36 Copynumber: 2.7 Consensus size: 35
1569290 GTAAATAGAA
1569300 AACATAAAGTAAATAAAATAAAAATAAAATAATATG
1 AACATAAAGTAAATAAAAT-AAAATAAAATAATATG
* * **
1569336 AACATAAAAGTGAATAAAATAAAATGATTTAATATG
1 AACAT-AAAGTAAATAAAATAAAATAAAATAATATG
* *
1569372 AGCATAAAGTAAATAAAATGAAAT
1 AACATAAAGTAAATAAAATAAAAT
1569396 GAAGTAACAG
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
35 17 0.33
36 22 0.42
37 13 0.25
ACGTcount: A:0.64, C:0.03, G:0.09, T:0.24
Consensus pattern (35 bp):
AACATAAAGTAAATAAAATAAAATAAAATAATATG
Found at i:1570136 original size:10 final size:10
Alignment explanation
Indices: 1570077--1570127 Score: 59
Period size: 10 Copynumber: 5.1 Consensus size: 10
1570067 ACTTTTTTTC
1570077 TTTTTTCTTT
1 TTTTTTCTTT
1570087 TTTTTCTCTTT
1 TTTTT-TCTTT
* *
1570098 ATTTTTCTCT
1 TTTTTTCTTT
*
1570108 ATTTTTCTTT
1 TTTTTTCTTT
1570118 TTTTTT-TTT
1 TTTTTTCTTT
1570127 T
1 T
1570128 CATTTTTTTC
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
9 4 0.11
10 23 0.64
11 9 0.25
ACGTcount: A:0.04, C:0.12, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTTTTCTTT
Found at i:1570871 original size:40 final size:43
Alignment explanation
Indices: 1570787--1570878 Score: 111
Period size: 41 Copynumber: 2.2 Consensus size: 43
1570777 TCCTATATTG
* * * *
1570787 AAAATTTTATGCGGTAAAAGTTTAATTGAAAGATCTTAT-TTA
1 AAAATTTCATGCGGTAAAAGTTTAATCGAAAGATCTAATATAA
1570829 AAAATTTCATG-GGTAAAAGTTTAATCG-AAGAT-TCAATATAA
1 AAAATTTCATGCGGTAAAAGTTTAATCGAAAGATCT-AATATAA
1570870 AAAATTTCA
1 AAAATTTCA
1570879 GATATGGAAG
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
39 1 0.02
40 7 0.16
41 26 0.59
42 10 0.23
ACGTcount: A:0.45, C:0.07, G:0.13, T:0.36
Consensus pattern (43 bp):
AAAATTTCATGCGGTAAAAGTTTAATCGAAAGATCTAATATAA
Found at i:1571441 original size:20 final size:20
Alignment explanation
Indices: 1571416--1571462 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
1571406 TTAACCCGAG
* * *
1571416 TTTGACTCATGTTGGTCACA
1 TTTGACTCAAGTTGATAACA
*
1571436 TTTGACTGAAGTTGATAACA
1 TTTGACTCAAGTTGATAACA
1571456 TTTGACT
1 TTTGACT
1571463 TAATTTGATC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.40
Consensus pattern (20 bp):
TTTGACTCAAGTTGATAACA
Found at i:1576849 original size:27 final size:30
Alignment explanation
Indices: 1576792--1576853 Score: 87
Period size: 27 Copynumber: 2.2 Consensus size: 30
1576782 TCTCCCCTTT
1576792 TTTTTGTTATTTCTCAAAAATATCTCTCCC
1 TTTTTGTTATTTCTCAAAAATATCTCTCCC
1576822 TTTTT-TTATTTCT--AAAATAATCTC-CCC
1 TTTTTGTTATTTCTCAAAAAT-ATCTCTCCC
1576849 TTTTT
1 TTTTT
1576854 ATAAAAAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
27 13 0.42
28 5 0.16
29 8 0.26
30 5 0.16
ACGTcount: A:0.23, C:0.21, G:0.02, T:0.55
Consensus pattern (30 bp):
TTTTTGTTATTTCTCAAAAATATCTCTCCC
Found at i:1583935 original size:34 final size:35
Alignment explanation
Indices: 1583866--1583938 Score: 96
Period size: 34 Copynumber: 2.1 Consensus size: 35
1583856 GGTGTTTGTG
*
1583866 GAAAGAATAAGCACAAAAAAATACAAATGAGCTTT
1 GAAAGAATAAGCACAAAAAAATACAAAAGAGCTTT
**
1583901 GAAAGAATAA-CA-ACAAAAAATACAAAAGCTCTTT
1 GAAAGAATAAGCACA-AAAAAATACAAAAGAGCTTT
1583935 GAAA
1 GAAA
1583939 TGTAGAAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
33 1 0.03
34 23 0.68
35 10 0.29
ACGTcount: A:0.59, C:0.12, G:0.12, T:0.16
Consensus pattern (35 bp):
GAAAGAATAAGCACAAAAAAATACAAAAGAGCTTT
Found at i:1586557 original size:13 final size:13
Alignment explanation
Indices: 1586539--1586563 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1586529 ATTACTCAAA
1586539 TGTATCGATACAT
1 TGTATCGATACAT
1586552 TGTATCGATACA
1 TGTATCGATACA
1586564 CTGATCTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1586614 original size:52 final size:52
Alignment explanation
Indices: 1586572--1586700 Score: 177
Period size: 52 Copynumber: 2.5 Consensus size: 52
1586562 CACTGATCTT
* *
1586572 TATATCGATACATGCAAGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TATATCGATACATACAAGCAAATTTACCCAGATGTATCGATACACTATGAAA
* * *
1586624 TGTATCGATACATACAGGCAAATTTACCCAGATGTATCGACACACTATGAAA
1 TATATCGATACATACAAGCAAATTTACCCAGATGTATCGATACACTATGAAA
* * * *
1586676 TGTATCAATACATGCAGGCAAATTT
1 TATATCGATACATACAAGCAAATTT
1586701 TCATATTTCG
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.27
Consensus pattern (52 bp):
TATATCGATACATACAAGCAAATTTACCCAGATGTATCGATACACTATGAAA
Found at i:1591917 original size:152 final size:151
Alignment explanation
Indices: 1591564--1592315 Score: 544
Period size: 151 Copynumber: 5.0 Consensus size: 151
1591554 AGTATCCAAT
* ** * *
1591564 GATGAACCTATCCTAAA--TACTCACCTTCGGCAT-GAAAGCAGACTAGGTGATAACCTAGTACT
1 GATGAACCTATCCTAAACGTA--CACCTTCGGAATAG-AAGCAGACCCGGTGATGACCTAGGACT
** * * * * * *
1591626 TAATTCTAAAAAAATGACTAAAATACCCCTAGGGGATACCTTCGACGTAGAAGTA-CTCGATACC
63 CGATT-TTAAAAAATTACTAAAATACCCCTAAGGGATACCTTCGACGTAAAAGTATCTCGGTAAC
1591690 CCTAAAAGACTTAAAAAGGTAAA-A
127 CCTAAAAGACTTAAAAAGGTAAAGA
* * * * * ** *
1591714 GGATGAACTTATCTTAAACGTACACCTTCGGCATAAAAGCGGACCTAGTGATGACCTACGACTCG
1 -GATGAACCTATCCTAAACGTACACCTTCGGAATAGAAGCAGACCCGGTGATGACCTAGGACTCG
* * * * *
1591779 ATTTTCAAAAAATTATTAAAATGCCCTTAAGGGATACCTTCGACATAAAAGTATCTAGGTAACCC
65 ATTTT-AAAAAATTACTAAAATACCCCTAAGGGATACCTTCGACGTAAAAGTATCTCGGTAACCC
*
1591844 TAAAGGACTTAAAAAGGTAAAGA
129 TAAAAGACTTAAAAAGGTAAAGA
* * ** *
1591867 GATGAACCTATCCTAAACATACACCTTCAGTGTAGAAGCAGACCCGGTGATGACTTAGGACTCGA
1 GATGAACCTATCCTAAACGTACACCTTCGGAATAGAAGCAGACCCGGTGATGACCTAGGACTCGA
* * * ** * *
1591932 TTTTAAAAAATTACTAAAATGCCCCT-ATGGATACTTTTAACGTAAAAATAT-TCCGGTAACTCT
66 TTTTAAAAAATTACTAAAATACCCCTAAGGGATACCTTCGACGTAAAAGTATCT-CGGTAACCCT
*
1591995 AAAAGACTTAAAAAGGTAAAGG
130 AAAAGACTTAAAAAGGTAAAGA
* * * * *
1592017 GATGAACCTATCCTAAACGTATACTTTTGGAATAGAAGCAGACTCGATGATGACCTAGGACTCG-
1 GATGAACCTATCCTAAACGTACACCTTCGGAATAGAAGCAGACCCGGTGATGACCTAGGACTCGA
* * * * * * * *
1592081 TTTTAAGAAAATTA-TGAAAATA-CCCTTA-TG--ACTTTTGACATGAAAGTATCCCGGTAACTC
66 TTTTAA-AAAATTACT-AAAATACCCCTAAGGGATACCTTCGACGTAAAAGTATCTCGGTAACCC
* * *
1592141 TAAAAAACTTAAAAAGATTAGAGATA
129 TAAAAGACTTAAAAAG-GTA-A-AGA
* ** * * *** * * * **
1592167 GGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAATGGAACAGATGACAACCTAGGACTCG
1 -GATGAACCTATCCTAAACGTACACCTTCGGAATAGAAGCAGACCCGGTGATGACCTAGGACTCG
* * ** * * * * * *
1592232 ATTCTAAGAAATTAC-AAAA-ATGCATATGGGTATACCTTCTACATGAAAGTATCTCGATAACCC
65 ATTTTAAAAAATTACTAAAATACCCCTAAGGG-ATACCTTCGACGTAAAAGTATCTCGGTAACCC
* *
1592295 TAAAGGACTTAAAAAGATAAA
129 TAAAAGACTTAAAAAGGTAAA
1592316 TAATGATGAT
Statistics
Matches: 478, Mismatches: 101, Indels: 44
0.77 0.16 0.07
Matches are distributed among these distances:
147 39 0.08
148 2 0.00
149 15 0.03
150 122 0.26
151 166 0.35
152 91 0.19
153 5 0.01
154 38 0.08
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.25
Consensus pattern (151 bp):
GATGAACCTATCCTAAACGTACACCTTCGGAATAGAAGCAGACCCGGTGATGACCTAGGACTCGA
TTTTAAAAAATTACTAAAATACCCCTAAGGGATACCTTCGACGTAAAAGTATCTCGGTAACCCTA
AAAGACTTAAAAAGGTAAAGA
Found at i:1592021 original size:150 final size:149
Alignment explanation
Indices: 1591691--1592184 Score: 532
Period size: 150 Copynumber: 3.3 Consensus size: 149
1591681 CTCGATACCC
* * * * *
1591691 CTAAAAGACTTAAAAAGGTAAAAGGATGAACTTATCTTAAACGTACACCTTCGGCATAAAAGCGG
1 CTAAAAGACTTAAAAAGGTAAAAGGATGAACCTATCCTAAACGTACACCTTCGGAATAGAAGCAG
** * * * *
1591756 ACCTAGTGATGACCTACGACTCGATTTTCAAAAAATTATTAAAATGCCCTTAAGGGATACCTTCG
66 ACCCGGTGATGACCTAGGACTCGATTTT-AAAAAATTA-TAAAATGCCCTT-ATGGATACTTTTG
* *
1591821 ACATAAAAGTA-TCTAGGTAACC
128 ACATAAAAGTATTC-CGGTAACT
* * * **
1591843 CTAAAGGACTTAAAAAGGT-AAAGAGATGAACCTATCCTAAACATACACCTTCAGTGTAGAAGCA
1 CTAAAAGACTTAAAAAGGTAAAAG-GATGAACCTATCCTAAACGTACACCTTCGGAATAGAAGCA
* * *
1591907 GACCCGGTGATGACTTAGGACTCGATTTTAAAAAATTACTAAAATGCCCCTATGGATACTTTTAA
65 GACCCGGTGATGACCTAGGACTCGATTTTAAAAAATTA-TAAAATGCCCTTATGGATACTTTTGA
* *
1591972 CGTAAAAATATTCCGGTAACT
129 CATAAAAGTATTCCGGTAACT
* * * *
1591993 CTAAAAGACTTAAAAAGGTAAAGGGATGAACCTATCCTAAACGTATACTTTTGGAATAGAAGCAG
1 CTAAAAGACTTAAAAAGGTAAAAGGATGAACCTATCCTAAACGTACACCTTCGGAATAGAAGCAG
* * *
1592058 ACTCGATGATGACCTAGGACTCG-TTTTAAGAAAATTATGAAAATACCCTTAT-G--ACTTTTGA
66 ACCCGGTGATGACCTAGGACTCGATTTTAA-AAAATTAT-AAAATGCCCTTATGGATACTTTTGA
* *
1592119 CATGAAAGTATCCCGGTAACT
129 CATAAAAGTATTCCGGTAACT
* *
1592140 CTAAAAAACTTAAAAAGATTAGAGATAGGATGAACCTATCCTAAA
1 CTAAAAGACTTAAAAAG-GTA-A-A-AGGATGAACCTATCCTAAA
1592185 TGCCCACCTT
Statistics
Matches: 288, Mismatches: 45, Indels: 19
0.82 0.13 0.05
Matches are distributed among these distances:
147 40 0.14
148 2 0.01
149 9 0.03
150 115 0.40
151 47 0.16
152 75 0.26
ACGTcount: A:0.40, C:0.18, G:0.17, T:0.26
Consensus pattern (149 bp):
CTAAAAGACTTAAAAAGGTAAAAGGATGAACCTATCCTAAACGTACACCTTCGGAATAGAAGCAG
ACCCGGTGATGACCTAGGACTCGATTTTAAAAAATTATAAAATGCCCTTATGGATACTTTTGACA
TAAAAGTATTCCGGTAACT
Found at i:1593666 original size:26 final size:25
Alignment explanation
Indices: 1593604--1593673 Score: 68
Period size: 30 Copynumber: 2.6 Consensus size: 25
1593594 GAAAGCTTTC
*
1593604 TTTCTTTTTTTTTCTTTGTTTATTT
1 TTTCTTTTTTTTTCTTTGCTTATTT
*
1593629 TGCTTGCGTTTTTTCTTTCTTTGCTTGTTT
1 T--TT-C-TTTTTT-TTTCTTTGCTTATTT
1593659 TTTCTTTTTTATTTC
1 TTTCTTTTTT-TTTC
1593674 CTGCCAGCAG
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
25 1 0.03
26 10 0.27
27 3 0.08
28 3 0.08
29 6 0.16
30 14 0.38
ACGTcount: A:0.03, C:0.13, G:0.09, T:0.76
Consensus pattern (25 bp):
TTTCTTTTTTTTTCTTTGCTTATTT
Found at i:1593962 original size:20 final size:20
Alignment explanation
Indices: 1593919--1593969 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
1593909 AATGGAGAAA
**
1593919 TAATAAAATAACAATAGTAC
1 TAATAAAATAACAATAAAAC
* *
1593939 TAATAAAATAATAATAAAAT
1 TAATAAAATAACAATAAAAC
*
1593959 TAATATAATAA
1 TAATAAAATAA
1593970 AATTAATTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (20 bp):
TAATAAAATAACAATAAAAC
Done.