Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007957.1 Hibiscus syriacus cultivar Beakdansim tig00110384_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 8646418
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 43
Found at i:1121598 original size:20 final size:20
Alignment explanation
Indices: 1121573--1121664 Score: 76
Period size: 20 Copynumber: 4.5 Consensus size: 20
1121563 TTGAAGATGA
1121573 TTGCGATTTTCAGAATCTCG
1 TTGCGATTTTCAGAATCTCG
***
1121593 TTGCGAAAGTCAGAATCTCG
1 TTGCGATTTTCAGAATCTCG
* **
1121613 TTGCGATTTTGTATTATCTCG
1 TTGCGATTTT-CAGAATCTCG
** * * *
1121634 TTGCGATAGTCAGTATCGCA
1 TTGCGATTTTCAGAATCTCG
1121654 TTGCGATTTTC
1 TTGCGATTTTC
1121665 CAAATTCGTA
Statistics
Matches: 54, Mismatches: 17, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
20 39 0.72
21 15 0.28
ACGTcount: A:0.21, C:0.18, G:0.22, T:0.39
Consensus pattern (20 bp):
TTGCGATTTTCAGAATCTCG
Found at i:1121703 original size:21 final size:21
Alignment explanation
Indices: 1121649--1121703 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 21
1121639 ATAGTCAGTA
* *
1121649 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGAATTTACAAAT
* **
1121670 TCGTATTGC-AATTTACTTAT
1 TCGCATTGCGAATTTACAAAT
1121690 TCGCATTGCGAATT
1 TCGCATTGCGAATT
1121704 AGGAAAATCG
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
20 15 0.56
21 12 0.44
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.42
Consensus pattern (21 bp):
TCGCATTGCGAATTTACAAAT
Found at i:1122494 original size:24 final size:24
Alignment explanation
Indices: 1122467--1122513 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
1122457 AGTCAGTATT
*
1122467 CGAAATTTGATCTTGGTCAATACC
1 CGAAATTTGATATTGGTCAATACC
* *
1122491 CGAACTTTGATATTGGTGAATAC
1 CGAAATTTGATATTGGTCAATAC
1122514 TCAGATTTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (24 bp):
CGAAATTTGATATTGGTCAATACC
Found at i:1125020 original size:19 final size:19
Alignment explanation
Indices: 1124998--1125122 Score: 91
Period size: 19 Copynumber: 7.4 Consensus size: 19
1124988 GGAAATTACT
1124998 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
1125017 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
*
1125031 ATCGCAATGCGAATTGAAA
1 ATCGCAATGCGAAATGAAA
*
1125050 ATCGCAACGCG-AAT----
1 ATCGCAATGCGAAATGAAA
*
1125064 TTCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
1125083 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
1125097 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
1125116 ATCGCAA
1 ATCGCAA
1125123 CGCAAATTTA
Statistics
Matches: 79, Mismatches: 12, Indels: 30
0.65 0.10 0.25
Matches are distributed among these distances:
14 28 0.35
15 5 0.06
16 4 0.05
17 4 0.05
18 3 0.04
19 35 0.44
ACGTcount: A:0.42, C:0.19, G:0.23, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:1125040 original size:33 final size:33
Alignment explanation
Indices: 1124998--1125124 Score: 202
Period size: 33 Copynumber: 3.8 Consensus size: 33
1124988 GGAAATTACT
1124998 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
1125031 ATCGCAATGCGAATTGAAAATCGCAACGCGA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
1125063 TTTCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1125097 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
1125125 CAAATTTAAT
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
32 1 0.01
33 83 0.98
34 1 0.01
ACGTcount: A:0.42, C:0.20, G:0.24, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:1125105 original size:66 final size:66
Alignment explanation
Indices: 1124999--1125131 Score: 239
Period size: 66 Copynumber: 2.0 Consensus size: 66
1124989 GAAATTACTA
* *
1124999 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAATTGAAAATCGCAACGCGAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCAAAT
1125064 T
66 T
*
1125065 TCGCAATGCGAAATGAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAAATCGCAACGCAAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCAAAT
1125130 T
66 T
1125131 T
1 T
1125132 AATTTCGTGT
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.41, C:0.20, G:0.23, T:0.17
Consensus pattern (66 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCAAAT
T
Found at i:1125177 original size:19 final size:19
Alignment explanation
Indices: 1125153--1125199 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
1125143 GTGATTCTCT
1125153 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
1125172 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
1125191 CATTGCGAT
1 CGTTGCGAT
1125200 AGTACTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.13, C:0.21, G:0.21, T:0.45
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:1125325 original size:14 final size:14
Alignment explanation
Indices: 1125306--1125342 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
1125296 CATCAATTAA
1125306 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
1125320 ACAAATCACCTTTT
1 ACAAATCAACTTTT
1125334 ACAAATCAA
1 ACAAATCAA
1125343 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:1126761 original size:21 final size:21
Alignment explanation
Indices: 1126695--1126761 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
1126685 GTGAATCGGG
*
1126695 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
1126715 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
1126737 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
1126758 CTCT
1 CTCT
1126762 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:1126780 original size:42 final size:41
Alignment explanation
Indices: 1126695--1126813 Score: 105
Period size: 42 Copynumber: 2.8 Consensus size: 41
1126685 GTGAATCGGG
* * * *
1126695 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGACAGGGGC
*
1126737 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGACAGGGGC
* * * * *
1126779 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGA
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGA
1126814 AAGGTGAGTC
Statistics
Matches: 64, Mismatches: 10, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
41 4 0.06
42 54 0.84
43 6 0.09
ACGTcount: A:0.23, C:0.18, G:0.36, T:0.23
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGACAGGGGC
Found at i:1127210 original size:91 final size:90
Alignment explanation
Indices: 1127035--1127219 Score: 300
Period size: 91 Copynumber: 2.0 Consensus size: 90
1127025 ATTTCAAACT
*
1127035 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGC
1 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTT--A-AATAAACAGTTTAGC
1127100 AGAATTGGCAGCAACCGAATAAATTTAC
63 AGAATTGGCAGCAACCGAATAAATTTAC
1127128 TTCAACCAAAAGACAAAACAAAAAGACAAATACTAACTTCACAGTGTT-AATAAACAGTTTAGCA
1 TTCAACCAAAAGACAAAAC--AAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCA
*
1127192 GTATTGGCAGCAACCGAATAAATTTAC
64 GAATTGGCAGCAACCGAATAAATTTAC
1127219 T
1 T
1127220 AAGCAATCTA
Statistics
Matches: 88, Mismatches: 2, Indels: 6
0.92 0.02 0.06
Matches are distributed among these distances:
91 42 0.48
93 19 0.22
95 27 0.31
ACGTcount: A:0.47, C:0.19, G:0.12, T:0.22
Consensus pattern (90 bp):
TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCAGA
ATTGGCAGCAACCGAATAAATTTAC
Found at i:1128952 original size:40 final size:38
Alignment explanation
Indices: 1128908--1129073 Score: 198
Period size: 40 Copynumber: 4.4 Consensus size: 38
1128898 TCTTTTGGTT
*
1128908 GAAATGAAAATCGCAACGAGATAATGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGA-AATGAAAATCGCAACGC
**
1128947 GGAAATGACTATCGCAACGAGAGAATGAAAATCGCAACGC
1 -GAAATGAAAATCGCAACGAGA-AATGAAAATCGCAACGC
* ** *
1128987 TAAATGACTATCGCAACGCGAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAAATGAAAATCGCAACGC
*
1129025 GAAATGAAAATCACAACGAG--A-G--AATCGCAACGC
1 GAAATGAAAATCGCAACGAGAAATGAAAATCGCAACGC
1129058 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
1129074 TGCGATTTTG
Statistics
Matches: 114, Mismatches: 12, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
33 26 0.23
35 1 0.01
36 1 0.01
38 32 0.28
39 19 0.17
40 35 0.31
ACGTcount: A:0.46, C:0.20, G:0.22, T:0.13
Consensus pattern (38 bp):
GAAATGAAAATCGCAACGAGAAATGAAAATCGCAACGC
Found at i:1128999 original size:19 final size:19
Alignment explanation
Indices: 1128908--1129078 Score: 181
Period size: 19 Copynumber: 9.1 Consensus size: 19
1128898 TCTTTTGGTT
*
1128908 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
1128927 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
** *
1128947 GGAAATGACTATCGCAACGA
1 -GAAATGAAAATCGCAACGC
1128967 GAGAATGAAAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
* **
1128987 TAAATGACTATCGCAACGC
1 GAAATGAAAATCGCAACGC
1129006 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
1129025 GAAATGAAAATCACAA--C
1 GAAATGAAAATCGCAACGC
*
1129042 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
1129058 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
1129077 GA
1 GA
1129079 TTTTGGTTTC
Statistics
Matches: 125, Mismatches: 19, Indels: 16
0.78 0.12 0.10
Matches are distributed among these distances:
14 9 0.07
15 1 0.01
16 2 0.02
17 2 0.02
18 1 0.01
19 64 0.51
20 44 0.35
21 2 0.02
ACGTcount: A:0.45, C:0.20, G:0.22, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:1129062 original size:52 final size:54
Alignment explanation
Indices: 1128933--1129078 Score: 179
Period size: 52 Copynumber: 2.6 Consensus size: 54
1128923 ACGAGATAAT
** * *
1128933 GAGAATCGCAACGCGGAAATGACTATCGCAACGAGAGAATGAAAATCGCAACGCTA
1 GAGAATCGCAACGC-GAAATGAAAATCGCAACGCGAGAATGAAAATCACAACGC-A
*
1128989 AATGACTATCGCAACGCGAAATGAAAATCGCAACGCGA-AATGAAAATCACAACG-A
1 GA-GA--ATCGCAACGCGAAATGAAAATCGCAACGCGAGAATGAAAATCACAACGCA
*
1129044 GAGAATCGCAACGCGAAATGAAAATCGCAATGCGA
1 GAGAATCGCAACGCGAAATGAAAATCGCAACGCGA
1129079 TTTTGGTTTC
Statistics
Matches: 80, Mismatches: 7, Indels: 10
0.82 0.07 0.10
Matches are distributed among these distances:
52 30 0.38
54 2 0.03
55 2 0.03
56 1 0.01
57 17 0.21
58 18 0.22
59 10 0.12
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.12
Consensus pattern (54 bp):
GAGAATCGCAACGCGAAATGAAAATCGCAACGCGAGAATGAAAATCACAACGCA
Found at i:1129090 original size:19 final size:19
Alignment explanation
Indices: 1129074--1129120 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
1129064 AAAATCGCAA
*
1129074 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGATTTCGCGT
*
1129093 TGCGATTTTTATTTCGCGT
1 TGCGATTTTGATTTCGCGT
1129112 TGCGATTTT
1 TGCGATTTT
1129121 CAATCTCGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.09, C:0.15, G:0.26, T:0.51
Consensus pattern (19 bp):
TGCGATTTTGATTTCGCGT
Found at i:1129704 original size:21 final size:20
Alignment explanation
Indices: 1129662--1129711 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
1129652 AGTAAGATTT
*
1129662 GCATTGCGATTTACGTATTC
1 GCATTGCGATTTACCTATTC
* *
1129682 GCGTTGCGATTTTCCTAATTC
1 GCATTGCGATTTACCT-ATTC
1129703 GCATTGCGA
1 GCATTGCGA
1129712 ATTATGAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 13 0.52
21 12 0.48
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.38
Consensus pattern (20 bp):
GCATTGCGATTTACCTATTC
Found at i:1129725 original size:21 final size:21
Alignment explanation
Indices: 1129701--1129773 Score: 76
Period size: 21 Copynumber: 3.5 Consensus size: 21
1129691 TTTTCCTAAT
* *
1129701 TCGCATTGCGAATTATGAAAA
1 TCGCAATGCGAATTACGAAAA
* *
1129722 TCGCAACGCGAA-TACGTAAA
1 TCGCAATGCGAATTACGAAAA
*
1129742 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAATTACGAAAA
* *
1129763 TTGCATTGCGA
1 TCGCAATGCGA
1129774 TAGTCAGTAT
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
20 17 0.40
21 25 0.60
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.23
Consensus pattern (21 bp):
TCGCAATGCGAATTACGAAAA
Found at i:1129827 original size:20 final size:21
Alignment explanation
Indices: 1129783--1129830 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
1129773 ATAGTCAGTA
*
1129783 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTACAAAT
**
1129804 TCGCATTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTACAAAT
1129824 TCGCATT
1 TCGCATT
1129831 ACGAATTAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 13 0.54
21 11 0.46
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.42
Consensus pattern (21 bp):
TCGCATTGCGATTTTACAAAT
Found at i:1129876 original size:21 final size:22
Alignment explanation
Indices: 1129824--1129876 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
1129814 ATTTACTTAT
*
1129824 TCGCATTACG-AATTAGGAAAA
1 TCGCATTGCGAAATTAGGAAAA
* **
1129845 TCGTAACGCGAAATT-GGAAAA
1 TCGCATTGCGAAATTAGGAAAA
1129866 TCGCATTGCGA
1 TCGCATTGCGA
1129877 TAGTCATAAT
Statistics
Matches: 24, Mismatches: 7, Indels: 2
0.73 0.21 0.06
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.23
Consensus pattern (22 bp):
TCGCATTGCGAAATTAGGAAAA
Found at i:1132123 original size:51 final size:50
Alignment explanation
Indices: 1132062--1132160 Score: 135
Period size: 51 Copynumber: 2.0 Consensus size: 50
1132052 CCTATGATAT
1132062 ATATTTAATTTTTAAAAAAAAAATTATAATTTTTTAGCATTTTTAATATGA
1 ATATTTAATTTTTAAAAAAAAAATTATAA-TTTTTAGCATTTTTAATATGA
* *** * *
1132113 ATATTTAATTTTTAATAATTTAATTATTATTTTTAGTATTTTTAATAT
1 ATATTTAATTTTTAAAAAAAAAATTATAATTTTTAGCATTTTTAATAT
1132161 TTTATTTTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
50 18 0.43
51 24 0.57
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (50 bp):
ATATTTAATTTTTAAAAAAAAAATTATAATTTTTAGCATTTTTAATATGA
Found at i:1134981 original size:18 final size:18
Alignment explanation
Indices: 1134958--1134993 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
1134948 TATATTATAC
1134958 GTTTTAAAAGTTGGGTGA
1 GTTTTAAAAGTTGGGTGA
1134976 GTTTTAAAAGTTGGGTGA
1 GTTTTAAAAGTTGGGTGA
1134994 CCAAAATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.33, T:0.39
Consensus pattern (18 bp):
GTTTTAAAAGTTGGGTGA
Found at i:1137709 original size:20 final size:20
Alignment explanation
Indices: 1137684--1137736 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
1137674 CAAGCAATGT
1137684 GGTATCGATACCATGGTAAG
1 GGTATCGATACCATGGTAAG
1137704 GGTATCGATACCATGGTAAG
1 GGTATCGATACCATGGTAAG
1137724 GGTATCGATACCA
1 GGTATCGATACCA
1137737 GTAAACATCG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (20 bp):
GGTATCGATACCATGGTAAG
Found at i:1138342 original size:59 final size:58
Alignment explanation
Indices: 1138246--1138411 Score: 219
Period size: 59 Copynumber: 2.8 Consensus size: 58
1138236 TTACCAAATA
* * *
1138246 GCACTTTGTGTGCAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTTC-GTATAAT
1 GCAC-TTGTGTGCTAAATGATAAGAAATTCATACTAAGTGTATGAATTTTCTGTATAAG
* **
1138304 GCACTTCGTGTGCTAACATGATAAGAAATCCATACTAAGTGTATGAA-TTTCTGTATCGG
1 GCACTT-GTGTGCTAA-ATGATAAGAAATTCATACTAAGTGTATGAATTTTCTGTATAAG
*
1138363 GCACCTTGTGTGCTAAATGATAAGAAATTCATACTAAGGGTATGAATTT
1 GCA-CTTGTGTGCTAAATGATAAGAAATTCATACTAAGTGTATGAATTT
1138412 CAGTATGGGA
Statistics
Matches: 95, Mismatches: 8, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
57 2 0.02
58 44 0.46
59 46 0.48
60 3 0.03
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.34
Consensus pattern (58 bp):
GCACTTGTGTGCTAAATGATAAGAAATTCATACTAAGTGTATGAATTTTCTGTATAAG
Found at i:1138412 original size:58 final size:58
Alignment explanation
Indices: 1138246--1138417 Score: 222
Period size: 58 Copynumber: 2.9 Consensus size: 58
1138236 TTACCAAATA
* * * *
1138246 GCACTTTGTGTGCAAAATGTTAAGAAATTCATACTAAGTGTATGAATTT-TCGTATAAT
1 GCACCTTGTGTGCTAAATGATAAGAAATTCATACTAAGTGTATGAATTTCT-GTATAAG
* **
1138304 GCA-CTTCGTGTGCTAACATGATAAGAAATCCATACTAAGTGTATGAATTTCTGTATCGG
1 GCACCTT-GTGTGCTAA-ATGATAAGAAATTCATACTAAGTGTATGAATTTCTGTATAAG
* *
1138363 GCACCTTGTGTGCTAAATGATAAGAAATTCATACTAAGGGTATGAATTTCAGTAT
1 GCACCTTGTGTGCTAAATGATAAGAAATTCATACTAAGTGTATGAATTTCTGTAT
1138418 GGGAAAAATA
Statistics
Matches: 100, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
57 2 0.02
58 47 0.47
59 47 0.47
60 4 0.04
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.34
Consensus pattern (58 bp):
GCACCTTGTGTGCTAAATGATAAGAAATTCATACTAAGTGTATGAATTTCTGTATAAG
Found at i:1138865 original size:68 final size:68
Alignment explanation
Indices: 1138781--1139036 Score: 370
Period size: 68 Copynumber: 3.8 Consensus size: 68
1138771 AAAAGAATAA
* * * * *
1138781 AGGCCTAACTGCGCATATGACAGAAATGTGTCATTTATACCAGTTAGATGAATGGCTAAGTTCCT
1 AGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTACCT
1138846 TTG
66 TTG
* * *
1138849 AGGCCTAACTGTGCATATGATAGAAAGGTGTCATTTATGCCAGTTAGATGAAAAGCTAAGTGCCT
1 AGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTACCT
1138914 TTG
66 TTG
*
1138917 AGACCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTACCT
1 AGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTACCT
1138982 TTG
66 TTG
* * * * *
1138985 AGGCCTAACTGTGCA-ATTGGCAGAAATGTGTCAATTATGTCAATTAGATGAA
1 AGGCCTAACTGTGCATA-TGACAGAAAGGTGTCATTTATGCCAGTTAGATGAA
1139037 CATTAAGTAC
Statistics
Matches: 170, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
67 1 0.01
68 169 0.99
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (68 bp):
AGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTACCT
TTG
Found at i:1139181 original size:81 final size:80
Alignment explanation
Indices: 1138986--1139225 Score: 331
Period size: 81 Copynumber: 3.0 Consensus size: 80
1138976 GTACCTTTGA
* * *
1138986 GGCCTAACTGTGCAATTGGCAGAAATGTGTCAATTATGTCAATTAGATGAACATTAAGTACCATT
1 GGCCTAACTGTGCAATTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACGTTAAGTACCATT
1139051 GAGTAAAAGAATAAT
66 GAGTAAAAGAATAAT
* *
1139066 GGCCTAACTGTGCAATTGGCAGAAATGTGCCAATTATGCCAGTTAGATGAACGGTTAAGTACCTT
1 GGCCTAACTGTGCAATTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAAC-GTTAAGTACCAT
1139131 TGAGTAAAAGAATAAT
65 TGAGTAAAAGAATAAT
* * * * * *
1139147 GGTCTAATTGTTCAATTGGCAGAAAGGTGTCAATTATACCAGTTAGACGAACGTTAA--ACACAG
1 GGCCTAACTGTGCAATTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACGTTAAGTAC-CA-
*
1139210 TTGAGTAAGAGAATAA
64 TTGAGTAAAAGAATAA
1139226 AGAAATTATA
Statistics
Matches: 143, Mismatches: 14, Indels: 6
0.88 0.09 0.04
Matches are distributed among these distances:
78 2 0.01
79 1 0.01
80 69 0.48
81 71 0.50
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.28
Consensus pattern (80 bp):
GGCCTAACTGTGCAATTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACGTTAAGTACCATT
GAGTAAAAGAATAAT
Found at i:1143051 original size:21 final size:21
Alignment explanation
Indices: 1143025--1143080 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
1143015 CTAGGTAGGG
*
1143025 GTATCGGTACCCTATAGAACA
1 GTATCGATACCCTATAGAACA
1143046 GTATCGATACCCTATAGAACA
1 GTATCGATACCCTATAGAACA
1143067 GTATCGATACCCTA
1 GTATCGATACCCTA
1143081 GGCAAGAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (21 bp):
GTATCGATACCCTATAGAACA
Found at i:1143323 original size:95 final size:93
Alignment explanation
Indices: 1143153--1143376 Score: 227
Period size: 95 Copynumber: 2.4 Consensus size: 93
1143143 CAAGCAATGT
* * * *
1143153 GGTATCGATACCATGGTAAGGGTATCGATACCAGTAAACATCGAATCTAATTGGGGTATCGATAC
1 GGTATCGATACCATGATGAGGGTATCGATACCAGGAAACATCGAAGCTAATTGGGGTATCGATAC
* * *
1143218 CTAGAGGGGGTATCGGTGCCATAACATAGG
66 ATAGAGGGGGTATCGATACC-TAA-ATAGG
** * **
1143248 GGTATCGATACCATGATGAGGGTATCGATACCAGGCTACATTGAAGCTAATTTTGGTATCGATAC
1 GGTATCGATACCATGATGAGGGTATCGATACCAGGAAACATCGAAGCTAATTGGGGTATCGATAC
* * *
1143313 AT-GAATGGGGTATTGATACCTTAATAGG
66 ATAG-AGGGGGTATCGATACCTAAATAGG
*
1143341 GTAGTATCGATACCATTA-GTAGGGGTATCGATACCA
1 G--GTATCGATACCATGATG-A-GGGTATCGATACCA
1143377 AAGCGCCAAA
Statistics
Matches: 108, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
93 6 0.06
94 4 0.04
95 84 0.78
96 14 0.13
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.27
Consensus pattern (93 bp):
GGTATCGATACCATGATGAGGGTATCGATACCAGGAAACATCGAAGCTAATTGGGGTATCGATAC
ATAGAGGGGGTATCGATACCTAAATAGG
Found at i:1143352 original size:22 final size:21
Alignment explanation
Indices: 1143302--1143376 Score: 84
Period size: 19 Copynumber: 3.6 Consensus size: 21
1143292 AGCTAATTTT
*
1143302 GGTATCGATA-CATGAAT-GG
1 GGTATCGATACCATTAATAGG
*
1143321 GGTATTGATACC-TTAATAGG
1 GGTATCGATACCATTAATAGG
*
1143341 GTAGTATCGATACCATTAGTAGG
1 G--GTATCGATACCATTAATAGG
1143364 GGTATCGATACCA
1 GGTATCGATACCA
1143377 AAGCGCCAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
19 13 0.28
20 4 0.09
21 12 0.26
22 10 0.21
23 8 0.17
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (21 bp):
GGTATCGATACCATTAATAGG
Found at i:1143790 original size:59 final size:58
Alignment explanation
Indices: 1143694--1143866 Score: 260
Period size: 58 Copynumber: 3.0 Consensus size: 58
1143684 ATTACAAAAT
** *
1143694 GGCACTTCGTGTGAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCTGTAT-A
1 GGCACTTCGTGTGCTAAATGATAAGAAATTCATACTAAGTGTATGAATTTCTGTATCA
*
1143751 GGTCACTTCGTGTGCTAACATGATAAGAAATTCATACTAAGTGTATGAATTTCTATATCA
1 GG-CACTTCGTGTGCTAA-ATGATAAGAAATTCATACTAAGTGTATGAATTTCTGTATCA
*
1143811 GGCACCTT-GTGTGCTAAATGATAAGAAATTCATACTAAGTGTATGAATTTCAGTAT
1 GGCA-CTTCGTGTGCTAAATGATAAGAAATTCATACTAAGTGTATGAATTTCTGTAT
1143867 GGAAAAATAT
Statistics
Matches: 106, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
57 2 0.02
58 50 0.47
59 48 0.45
60 6 0.06
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.35
Consensus pattern (58 bp):
GGCACTTCGTGTGCTAAATGATAAGAAATTCATACTAAGTGTATGAATTTCTGTATCA
Found at i:1144342 original size:68 final size:68
Alignment explanation
Indices: 1144224--1144419 Score: 356
Period size: 68 Copynumber: 2.9 Consensus size: 68
1144214 AAAAGAATAA
1144224 AGGCCTAATTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
1 AGGCCTAATTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
1144289 TTG
66 TTG
* *
1144292 AGGCCTAATTGTGCATATGACAGAAAGGTGTCATTTATGCTAGTTTGATGAAAGGCTAAGTGCCT
1 AGGCCTAATTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
1144357 TTG
66 TTG
* *
1144360 AGACCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAG
1 AGGCCTAATTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAG
1144420 CGATATAAGT
Statistics
Matches: 122, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
68 122 1.00
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (68 bp):
AGGCCTAATTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
TTG
Found at i:1151168 original size:14 final size:14
Alignment explanation
Indices: 1151149--1151178 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
1151139 TCGCGTAGAT
1151149 GATCTTAGTGTGGA
1 GATCTTAGTGTGGA
1151163 GATCTTAGTGTGGA
1 GATCTTAGTGTGGA
1151177 GA
1 GA
1151179 CCCAAGTGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.07, G:0.37, T:0.33
Consensus pattern (14 bp):
GATCTTAGTGTGGA
Found at i:1153262 original size:20 final size:20
Alignment explanation
Indices: 1153237--1153295 Score: 82
Period size: 20 Copynumber: 3.0 Consensus size: 20
1153227 TCTCCAAATC
1153237 GAAGGACTGGTCTCTATACT
1 GAAGGACTGGTCTCTATACT
* * *
1153257 GTAGGACTGATCTCCATACT
1 GAAGGACTGGTCTCTATACT
*
1153277 GAAAGACTGGTCTCTATAC
1 GAAGGACTGGTCTCTATAC
1153296 CAAATGACTA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (20 bp):
GAAGGACTGGTCTCTATACT
Found at i:1161037 original size:25 final size:26
Alignment explanation
Indices: 1160999--1161047 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
1160989 TTCTAAGGTA
*
1160999 TATTTTATTATATTTTTAA-TATTTTG
1 TATTTAATTATA-TTTTAAGTATTTTG
1161025 TATTTAATT-TATTTTAAGTATTT
1 TATTTAATTATATTTTAAGTATTT
1161048 AATTTATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 6 0.29
25 7 0.33
26 8 0.38
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (26 bp):
TATTTAATTATATTTTAAGTATTTTG
Found at i:1161062 original size:25 final size:25
Alignment explanation
Indices: 1161025--1161086 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
1161015 TAATATTTTG
1161025 TATTTAATTTATTTTAAGTATTTAATT
1 TATTTAA--TATTTTAAGTATTTAATT
**
1161052 TATTTAATATTTTACTTATTTAATT
1 TATTTAATATTTTAAGTATTTAATT
* *
1161077 TTTTTCATAT
1 TATTTAATAT
1161087 ATAAAATGGC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
25 24 0.77
27 7 0.23
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.65
Consensus pattern (25 bp):
TATTTAATATTTTAAGTATTTAATT
Found at i:1161070 original size:16 final size:16
Alignment explanation
Indices: 1161037--1161079 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
1161027 TTTAATTTAT
* *
1161037 TTTAAGTATTTAATTTA
1 TTTAA-TATTTTACTTA
1161054 TTTAATATTTTACTTA
1 TTTAATATTTTACTTA
1161070 TTTAAT-TTTT
1 TTTAATATTTT
1161080 TTCATATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 4 0.17
16 15 0.62
17 5 0.21
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (16 bp):
TTTAATATTTTACTTA
Found at i:1166531 original size:24 final size:24
Alignment explanation
Indices: 1166500--1166549 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
1166490 GAAAGTCGTC
1166500 ATTATTTGAGTTTAA-ACAAATAAT
1 ATTATTTGAGTTTAATA-AAATAAT
**
1166524 ATTATTTGTTTTTAATAAAATAAT
1 ATTATTTGAGTTTAATAAAATAAT
1166548 AT
1 AT
1166550 GAACGAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 22 0.96
25 1 0.04
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (24 bp):
ATTATTTGAGTTTAATAAAATAAT
Found at i:1179343 original size:35 final size:35
Alignment explanation
Indices: 1179287--1179353 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 35
1179277 TTATATTGTC
1179287 TTTAAAAAATATAAATGTTAATATTAATAATTTAAT
1 TTTAAAAAATATAAATGTTAATA-TAATAATTTAAT
*
1179323 TTTAAAAAAT-TAAAAT-TTAATATATTAATTT
1 TTTAAAAAATAT-AAATGTTAATATAATAATTT
1179354 TTAGAGTTGG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
34 8 0.28
35 7 0.24
36 14 0.48
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.46
Consensus pattern (35 bp):
TTTAAAAAATATAAATGTTAATATAATAATTTAAT
Found at i:1180338 original size:68 final size:68
Alignment explanation
Indices: 1180229--1180362 Score: 232
Period size: 68 Copynumber: 2.0 Consensus size: 68
1180219 TGATTAGTGG
* *
1180229 TGATCACGAATGGTTCGAATCGTAAGCCTCCACGAAAACACGTCTCATCCTCTACTCAGTTCACC
1 TGATCACGAATGGTTCGAATCGTAAGCCTCCACGAAAACACGTCTCAACCTCTACTCAGATCACC
1180294 CAA
66 CAA
* *
1180297 TGATCACGAATGGTTTGAATCGTAAGCCTCCTCGAAAACACGTCTCAACCTCTACTCAGATCACC
1 TGATCACGAATGGTTCGAATCGTAAGCCTCCACGAAAACACGTCTCAACCTCTACTCAGATCACC
1180362 C
66 C
1180363 GATTGAGAGC
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
68 62 1.00
ACGTcount: A:0.29, C:0.32, G:0.15, T:0.24
Consensus pattern (68 bp):
TGATCACGAATGGTTCGAATCGTAAGCCTCCACGAAAACACGTCTCAACCTCTACTCAGATCACC
CAA
Found at i:1180646 original size:77 final size:78
Alignment explanation
Indices: 1180508--1180655 Score: 174
Period size: 77 Copynumber: 1.9 Consensus size: 78
1180498 TAACTAAAAG
* *
1180508 TCTTATCTAATTAATTCAAATTAAATATCCATTAAAGACTTACAATCTGGATTACAATC-TTTAA
1 TCTTATCTAATTAATTCAAATTAAATATCCATTAAAGACTTACAATCAGAATTACAATCTTTTAA
1180572 CGTTTATTTAAAC
66 CGTTTATTTAAAC
* * * * ** * *
1180585 TCTTATTTAATT-ATTCGAATTAAATATCTATTAAAAGAGTTGTAATCAGAATTATATTCTTTTA
1 TCTTATCTAATTAATTCAAATTAAATATCCATT-AAAGACTTACAATCAGAATTACAATCTTTTA
*
1180649 ATGTTTA
65 ACGTTTA
1180656 CTTACTATAT
Statistics
Matches: 58, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
76 18 0.31
77 30 0.52
78 10 0.17
ACGTcount: A:0.38, C:0.11, G:0.07, T:0.44
Consensus pattern (78 bp):
TCTTATCTAATTAATTCAAATTAAATATCCATTAAAGACTTACAATCAGAATTACAATCTTTTAA
CGTTTATTTAAAC
Found at i:1185570 original size:43 final size:42
Alignment explanation
Indices: 1185504--1185600 Score: 124
Period size: 43 Copynumber: 2.2 Consensus size: 42
1185494 AATGTCACAT
**
1185504 AATTGAAAAAATTAGGGACCTTAATTATAAAAG-TAAAAAAGTGG
1 AATTG-AAAAATTAAAGACCTTAATTATAAAAGAT-AAAAAGT-G
*
1185548 AATTGAAAAATTAAAGATCTTAATTATAAAAGATAAAAAGTG
1 AATTGAAAAATTAAAGACCTTAATTATAAAAGATAAAAAGTG
1185590 ATATTGAAAAA
1 A-ATTGAAAAA
1185601 AATTAAGGGT
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
42 2 0.04
43 40 0.83
44 6 0.12
ACGTcount: A:0.56, C:0.03, G:0.14, T:0.27
Consensus pattern (42 bp):
AATTGAAAAATTAAAGACCTTAATTATAAAAGATAAAAAGTG
Found at i:1187838 original size:987 final size:980
Alignment explanation
Indices: 1185877--1187841 Score: 3644
Period size: 987 Copynumber: 2.0 Consensus size: 980
1185867 CAAAGTTATC
* *
1185877 AAAGGTTCTAGGCGCATCGAGGCGCAAAGTGTCCTAGAGCCTTGAGGCGCATGAAAGGCACGGGA
1 AAAGGCTCAAGGCGCATCGAGGCGCAAAGTGTCCTAGAGCCTTGAGGCGCATGAAAGGCACGGGA
*
1185942 TTCACGAAGGCGAGGCGCATGATATCCAAAAAATTGTAATATATGTATATATTAATGCAATCAAA
66 TTCACGAAGGCGAGGCGCATGATATCCAAAAAATTGTAATACATGTATATATTAATGCAATCAAA
1186007 CTCAAATATCATAGATACCCAATATTAAGCTTCAATAGAGTTCATTCTAAAACTCAAAATACCAA
131 CTCAAATATCATAGATACCCAATATTAAGCTTCAATAGAGTTCATTCTAAAACTCAAAATACCAA
*
1186072 CCTAACGTCATAAAAGCTATCAGCAAGCATAATCAAGTACTAAGTTTAACAAAAACATCTAACAT
196 CCTAACGTCATAAAAGCTATCAACAAGCATAATCAAGTACTAAGTTTAACAAAAACATCTAACAT
1186137 GCATAAACAAAACATCAAATAAAGTCACTGATAATCATCATCAAACATCAAACTCATCCTCATCA
261 GCATAAACAAAACATCAAATAAAGTCACTGATAATCATCATCAAACATCAAACTCATCCTCATCA
*
1186202 TCATCGTCAAGTGGTATGTCATCATTTTCCTCCTCATTCGTCTCACAATCCCCAATGTTTTCTTC
326 TCATCGTCAAGTGGTATGTCATCATCTTCCTCCTCATTCGTCTCACAATCCCCAATGTTTTCTTC
* *
1186267 TTCAGTGTCATTCTCCTCTAGCATAACAACTTCATCATCTTCATCTACAAGGTGTGGTCTAGCTT
391 TTCAGTGTCACTCTCCTCTAGCATAACAACTTCATCATCTCCATCTACAAGGTGTGGTCTAGCTT
1186332 TTTCCTTTCCTTTCGAGCTTGAACTAGCAACGTTCTTTCTTCTAGTATTATGGTCACATCATCAA
456 TTTCCTTTCCTTTCGAGCTTGAACTAGCAACGTTCTTTCTTCTAGTATTATGGTCACATCATCAA
*
1186397 AGTTGTCTACATCATCAAAATCATATAAAACTTCCGATTCTTTTTTTATTTTGACATTTTTTCTC
521 AGTTGTCTACAACATCAAAATCATATAAAACTTCCGATTCTTTTTTTATTTTGACATTTTTTCTC
1186462 CATGTATTCTCTAATATCCTCATGTACATGAGCTGGACATTTTAGACATCTTGTACTATCCCGGT
586 CATGTATTCTCTAATATCCTCATGTACATGAGCTGGACATTTTAGACATCTTGTACTATCCCGGT
1186527 ATCCACCCACTATATGTTGTTTACCCCTATAAATACCTCCGAAAGTGATTTTATCACAAAACATA
651 ATCCACCCACTATATGTTGTTTACCCCTATAAATACCTCCGAAAGTGATTTTATCACAAAACATA
*
1186592 CATTTTACTTTACCTTTGCCCATGTTAAAGCAATACTTCCAAGCTATATCTTGCTTTGAAGAAGT
716 CATTTTACTTTACCTTTGCCCATGTCAAAGCAATACTTCCAAGCTATATCTTGCTTTGAAGAAGT
* * *
1186657 TGATGACTGCTTTTCAGAAGTCATAATGTCAATCTAGATGTTCCAAAAGCAAAATATTGATGATT
781 TGATGAATGCTTTTCAGAAGTCATAATGTCAATCCAGATGTTCCAAAAGAAAAATATTGATGATT
* *
1186722 AACAGCTGCAATATTGTCCTAGAAGCCAGAAAAATGAAAACATAAAATTAAATAAGAGAAATTGT
846 AACAGCTGCAATATTGTCCTAGAAGCCAGAAAAATGAAAACAGAAAATTAAATAAGAGAAACTGT
*
1186787 GATTACCAAGAACATACACATACGCACGAATAACTGCATACTTAGAAAAGAAAAGAAAAACAAGA
911 GATTACCAAGAACAGACACATACGCACGAATAACTGCATACTTAGAAAAGAAAAGAAAAACAAGA
1186852 ACATA
976 ACATA
1186857 AAAGGCTCAAGGCGCATCGAGGCGCAAAGTGTCCTAGAGCCTTGAGGCTCGAGGTGCATGAAAGG
1 AAAGGCTCAAGGCGCATCGAGGCGCAAAGTGTCCTAGAGCCTTGAGG--C-----GCATGAAAGG
1186922 CACGGGATTCACGAAGGCGAGGCGCATGATATCCAAAAAATTGTAATACATGTATATATTAATGC
59 CACGGGATTCACGAAGGCGAGGCGCATGATATCCAAAAAATTGTAATACATGTATATATTAATGC
* *
1186987 AATGAAACTCAAATATCATAGATACCCAATATTAGGCTTCAATAGAGTTCATTCTAAAACTCAAA
124 AATCAAACTCAAATATCATAGATACCCAATATTAAGCTTCAATAGAGTTCATTCTAAAACTCAAA
1187052 ATACCAACCTAACGTCATAAAAGCTATCAACAAGCATAATCAAGTACTAAGTTTAACAAAAACAT
189 ATACCAACCTAACGTCATAAAAGCTATCAACAAGCATAATCAAGTACTAAGTTTAACAAAAACAT
1187117 CTAACATGCATAAACAAAACATCAAATAAAGTCACTGATAATCATCATCAAACATCAAACTCATC
254 CTAACATGCATAAACAAAACATCAAATAAAGTCACTGATAATCATCATCAAACATCAAACTCATC
*
1187182 CTCATCATCATCTTCAAGTGGTATGTCATCATCTTCCTCCTCATTCGTCTCACAATCCCCAATGT
319 CTCATCATCATCGTCAAGTGGTATGTCATCATCTTCCTCCTCATTCGTCTCACAATCCCCAATGT
1187247 TTTCTTCTTCAGTGTCACTCTCCTCTAGCATAACAACTTCATCATCTCCATCTACAAGGTGTGGT
384 TTTCTTCTTCAGTGTCACTCTCCTCTAGCATAACAACTTCATCATCTCCATCTACAAGGTGTGGT
1187312 CTAGCTTTTTCCTTTCCTTTCGAGCTTGAACTAGCAACGTTCTTTCTTCTAGTATTATGGTCACA
449 CTAGCTTTTTCCTTTCCTTTCGAGCTTGAACTAGCAACGTTCTTTCTTCTAGTATTATGGTCACA
*
1187377 TCATCAAAGTTGTCTACAACATCAAAATCATATAAAACTTCCGCTTC-TTTTTTATTTTGACATT
514 TCATCAAAGTTGTCTACAACATCAAAATCATATAAAACTTCCGATTCTTTTTTTATTTTGACATT
*
1187441 TTTTCTCCATGTATTCTCTAATATCCTCATGTACATGAGCTGGACATTTTAGACATCTTTTACTA
579 TTTTCTCCATGTATTCTCTAATATCCTCATGTACATGAGCTGGACATTTTAGACATCTTGTACTA
* *
1187506 TTCCGGTATCCACCCACTATATGTTGTTTACCCCTATAAATACCTCCGGAAGTGATTTTATCACA
644 TCCCGGTATCCACCCACTATATGTTGTTTACCCCTATAAATACCTCCGAAAGTGATTTTATCACA
*
1187571 AAACATACATTTTACTTTACCTTTGCCCATGTCAATGCAATACTTCCAAGCTATATCTTGCTTTG
709 AAACATACATTTTACTTTACCTTTGCCCATGTCAAAGCAATACTTCCAAGCTATATCTTGCTTTG
1187636 AAGAAGTTGATGAATGCTTTTCAGAAGTCATAATGTCAATCCAGATGTTCCAAAAGAAAAATATT
774 AAGAAGTTGATGAATGCTTTTCAGAAGTCATAATGTCAATCCAGATGTTCCAAAAGAAAAATATT
1187701 GATGATTAACAGCTGCAATATTGTCCTAGAAGCCAGAAAAATGAAAACAGAAAATTAAATAAGAG
839 GATGATTAACAGCTGCAATATTGTCCTAGAAGCCAGAAAAATGAAAACAGAAAATTAAATAAGAG
1187766 AAACTGTGATTACCAAGAACAGACACATACGCACGAATAACTGCATACTTAGAAAAGAAAAGAAA
904 AAACTGTGATTACCAAGAACAGACACATACGCACGAATAACTGCATACTTAGAAAAGAAAAG-AA
1187831 AAACAAGAACA
968 AAACAAGAACA
1187842 GACACATACA
Statistics
Matches: 954, Mismatches: 23, Indels: 9
0.97 0.02 0.01
Matches are distributed among these distances:
980 45 0.05
982 1 0.00
986 393 0.41
987 515 0.54
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.30
Consensus pattern (980 bp):
AAAGGCTCAAGGCGCATCGAGGCGCAAAGTGTCCTAGAGCCTTGAGGCGCATGAAAGGCACGGGA
TTCACGAAGGCGAGGCGCATGATATCCAAAAAATTGTAATACATGTATATATTAATGCAATCAAA
CTCAAATATCATAGATACCCAATATTAAGCTTCAATAGAGTTCATTCTAAAACTCAAAATACCAA
CCTAACGTCATAAAAGCTATCAACAAGCATAATCAAGTACTAAGTTTAACAAAAACATCTAACAT
GCATAAACAAAACATCAAATAAAGTCACTGATAATCATCATCAAACATCAAACTCATCCTCATCA
TCATCGTCAAGTGGTATGTCATCATCTTCCTCCTCATTCGTCTCACAATCCCCAATGTTTTCTTC
TTCAGTGTCACTCTCCTCTAGCATAACAACTTCATCATCTCCATCTACAAGGTGTGGTCTAGCTT
TTTCCTTTCCTTTCGAGCTTGAACTAGCAACGTTCTTTCTTCTAGTATTATGGTCACATCATCAA
AGTTGTCTACAACATCAAAATCATATAAAACTTCCGATTCTTTTTTTATTTTGACATTTTTTCTC
CATGTATTCTCTAATATCCTCATGTACATGAGCTGGACATTTTAGACATCTTGTACTATCCCGGT
ATCCACCCACTATATGTTGTTTACCCCTATAAATACCTCCGAAAGTGATTTTATCACAAAACATA
CATTTTACTTTACCTTTGCCCATGTCAAAGCAATACTTCCAAGCTATATCTTGCTTTGAAGAAGT
TGATGAATGCTTTTCAGAAGTCATAATGTCAATCCAGATGTTCCAAAAGAAAAATATTGATGATT
AACAGCTGCAATATTGTCCTAGAAGCCAGAAAAATGAAAACAGAAAATTAAATAAGAGAAACTGT
GATTACCAAGAACAGACACATACGCACGAATAACTGCATACTTAGAAAAGAAAAGAAAAACAAGA
ACATA
Found at i:1195777 original size:28 final size:28
Alignment explanation
Indices: 1195745--1195828 Score: 141
Period size: 28 Copynumber: 3.0 Consensus size: 28
1195735 ACATCGTCCT
* *
1195745 TGCTTTAGAGGTGCTAACTCGCAGTGTA
1 TGCTTTACAGGTACTAACTCGCAGTGTA
1195773 TGCTTTACAGGTACTAACTCGCAGTGTA
1 TGCTTTACAGGTACTAACTCGCAGTGTA
*
1195801 TGCTTTACAGGTACTGACTCGCAGTGTA
1 TGCTTTACAGGTACTAACTCGCAGTGTA
1195829 ATATTTTTCC
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 53 1.00
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.32
Consensus pattern (28 bp):
TGCTTTACAGGTACTAACTCGCAGTGTA
Found at i:1198998 original size:50 final size:50
Alignment explanation
Indices: 1198895--1198998 Score: 111
Period size: 50 Copynumber: 2.1 Consensus size: 50
1198885 TATAATACTT
** * *
1198895 TTTATTGAAACTTTTCACTCCGACGTCACAAAATCTAATAAAAATTCTAA
1 TTTATTGAAACTCATCACTCCGACGTCACAAAATCTAATAAAAAATATAA
* * * * *
1198945 TTTATTGGAACTCATCACTTCGACGTGAC-AAATTTAAATAAAAAATATTA
1 TTTATTGAAACTCATCACTCCGACGTCACAAAATCT-AATAAAAAATATAA
1198995 TTTA
1 TTTA
1198999 GGCAAACTCG
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
49 5 0.11
50 39 0.89
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (50 bp):
TTTATTGAAACTCATCACTCCGACGTCACAAAATCTAATAAAAAATATAA
Found at i:1205763 original size:20 final size:22
Alignment explanation
Indices: 1205738--1205778 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
1205728 ATGTTCAAAT
1205738 ATTGTTT-AAA-GATTAATTTA
1 ATTGTTTGAAATGATTAATTTA
1205758 ATTGTTTGAAATGATTAATTT
1 ATTGTTTGAAATGATTAATTT
1205779 TCAATATATG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.37
21 3 0.16
22 9 0.47
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (22 bp):
ATTGTTTGAAATGATTAATTTA
Found at i:1205900 original size:21 final size:22
Alignment explanation
Indices: 1205865--1205944 Score: 76
Period size: 21 Copynumber: 3.7 Consensus size: 22
1205855 TTGGTGCAGA
*
1205865 GGGAATCGA-TCCCCCCATGA-
1 GGGAACCGATTCCCCCCATGAG
**
1205885 GGGAACCGATTCCCCCTTTGAAG
1 GGGAACCGATTCCCCCCATG-AG
*
1205908 GGGAACCGGTTCCCCCCAT-AG
1 GGGAACCGATTCCCCCCATGAG
* *
1205929 GGGAATCGATACCCCC
1 GGGAACCGATTCCCCC
1205945 TGGGGTTCTG
Statistics
Matches: 48, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
20 8 0.17
21 23 0.48
22 1 0.02
23 16 0.33
ACGTcount: A:0.23, C:0.35, G:0.26, T:0.16
Consensus pattern (22 bp):
GGGAACCGATTCCCCCCATGAG
Found at i:1206410 original size:10 final size:10
Alignment explanation
Indices: 1206395--1206423 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
1206385 AAAACCGTAT
1206395 TTTTCAAAAG
1 TTTTCAAAAG
1206405 TTTTCAAAAG
1 TTTTCAAAAG
1206415 TTTTCAAAA
1 TTTTCAAAA
1206424 ACTTTGCCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.41, C:0.10, G:0.07, T:0.41
Consensus pattern (10 bp):
TTTTCAAAAG
Found at i:1207445 original size:12 final size:13
Alignment explanation
Indices: 1207424--1207455 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
1207414 AGATGAGCCT
1207424 GAGC-AGCCCGAG
1 GAGCAAGCCCGAG
1207436 GAG-AAGCCCGAG
1 GAGCAAGCCCGAG
1207448 GAGCAAGC
1 GAGCAAGC
1207456 ACAACAAACG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 14 0.78
13 4 0.22
ACGTcount: A:0.31, C:0.28, G:0.41, T:0.00
Consensus pattern (13 bp):
GAGCAAGCCCGAG
Found at i:1209844 original size:20 final size:21
Alignment explanation
Indices: 1209819--1209857 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
1209809 ACGTTAAGGA
1209819 ATGTACCGATACA-TTATAGT
1 ATGTACCGATACACTTATAGT
1209839 ATGTACCGATACACTTATA
1 ATGTACCGATACACTTATA
1209858 AAGGAAATGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (21 bp):
ATGTACCGATACACTTATAGT
Found at i:1210706 original size:20 final size:20
Alignment explanation
Indices: 1210681--1210735 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
1210671 GAGGGTTCAT
*
1210681 AGGTCCTTCAGGACATACAG
1 AGGTCCTTCGGGACATACAG
*
1210701 AGGTCCTTCGGGACATACAT
1 AGGTCCTTCGGGACATACAG
*
1210721 AGGTCATTCGGGACA
1 AGGTCCTTCGGGACA
1210736 AATTTCACAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (20 bp):
AGGTCCTTCGGGACATACAG
Found at i:1214874 original size:69 final size:70
Alignment explanation
Indices: 1214763--1214902 Score: 273
Period size: 69 Copynumber: 2.0 Consensus size: 70
1214753 TAAATATTAC
1214763 ATTCAAAGAAAACACAGCAGTACAATATTGACCAAAATAAACTAAGGTACAGCACATGGC-TTTC
1 ATTCAAAGAAAACACAGCAGTACAATATTGACCAAAATAAACTAAGGTACAGCACATGGCTTTTC
1214827 GTAGG
66 GTAGG
1214832 ATTCAAAGAAAACACAGCAGTACAATATTGACCAAAATAAACTAAGGTACAGCACATGGCTTTTC
1 ATTCAAAGAAAACACAGCAGTACAATATTGACCAAAATAAACTAAGGTACAGCACATGGCTTTTC
1214897 GTAGG
66 GTAGG
1214902 A
1 A
1214903 GGACAAAGAA
Statistics
Matches: 70, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
69 60 0.86
70 10 0.14
ACGTcount: A:0.44, C:0.19, G:0.17, T:0.21
Consensus pattern (70 bp):
ATTCAAAGAAAACACAGCAGTACAATATTGACCAAAATAAACTAAGGTACAGCACATGGCTTTTC
GTAGG
Found at i:1216927 original size:22 final size:23
Alignment explanation
Indices: 1216896--1216942 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
1216886 AAAATCTATT
1216896 TATTAATATTTCTAATAATATAA
1 TATTAATATTTCTAATAATATAA
* *
1216919 TATT-ATATTTTTAATATTATAA
1 TATTAATATTTCTAATAATATAA
1216941 TA
1 TA
1216943 AAATAATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (23 bp):
TATTAATATTTCTAATAATATAA
Found at i:1216949 original size:30 final size:33
Alignment explanation
Indices: 1216892--1216969 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 33
1216882 ATTAAAAATC
* *
1216892 TATTTATTAATATTTCTAATAATATAAT-ATTA
1 TATTTATTAATATTTATAATAAAATAATAATTA
1216924 TATTT-TTAATA-TTATAATAAAATAATCAATTA
1 TATTTATTAATATTTATAATAAAATAAT-AATTA
*
1216956 TATTATAATAATAT
1 TATT-TATTAATAT
1216970 AAGATATTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
30 13 0.34
31 6 0.16
32 13 0.34
33 1 0.03
34 5 0.13
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (33 bp):
TATTTATTAATATTTATAATAAAATAATAATTA
Found at i:1217065 original size:19 final size:20
Alignment explanation
Indices: 1217043--1217093 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 20
1217033 ATTTCATAGA
*
1217043 AATATATTATTAA-ATTATT
1 AATATATTAATAATATTATT
*
1217062 AATA-ATGAATAATATTATT
1 AATATATTAATAATATTATT
1217081 AAT-TATTAATAAT
1 AATATATTAATAAT
1217094 GAATAATTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 6 0.22
19 21 0.78
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (20 bp):
AATATATTAATAATATTATT
Found at i:1217084 original size:26 final size:27
Alignment explanation
Indices: 1217046--1217100 Score: 103
Period size: 26 Copynumber: 2.1 Consensus size: 27
1217036 TCATAGAAAT
1217046 ATATTATTAAATTATTAATAATGAATA
1 ATATTATTAAATTATTAATAATGAATA
1217073 ATATTATT-AATTATTAATAATGAATA
1 ATATTATTAAATTATTAATAATGAATA
1217099 AT
1 AT
1217101 TATTTATATT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 20 0.71
27 8 0.29
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (27 bp):
ATATTATTAAATTATTAATAATGAATA
Found at i:1217136 original size:27 final size:29
Alignment explanation
Indices: 1217058--1217138 Score: 84
Period size: 27 Copynumber: 3.0 Consensus size: 29
1217048 ATTATTAAAT
* *
1217058 TATTAATAATGAATAA-TATTATTA-AT-
1 TATTAATAATGAATAATTATTAATATTTA
*
1217084 TATTAATAATGAATAATTATTTATATTTA
1 TATTAATAATGAATAATTATTAATATTTA
1217113 TATTAAT-AT-AATAATCTA-TAATATTT
1 TATTAATAATGAATAAT-TATTAATATTT
1217139 TAATAAAGAA
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
26 16 0.34
27 19 0.40
28 5 0.11
29 7 0.15
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.49
Consensus pattern (29 bp):
TATTAATAATGAATAATTATTAATATTTA
Found at i:1217309 original size:26 final size:25
Alignment explanation
Indices: 1217280--1217329 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
1217270 CATTATAAAA
*
1217280 TAATA-TTTAATAATAAATAAATATTT
1 TAATATTTTAAAAAT-AAT-AATATTT
1217306 TAATATTTTAAAAATAATAATATT
1 TAATATTTTAAAAATAATAATATT
1217330 AAGTTTTATG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 6 0.27
26 8 0.36
27 8 0.36
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (25 bp):
TAATATTTTAAAAATAATAATATTT
Found at i:1217553 original size:30 final size:27
Alignment explanation
Indices: 1217519--1217574 Score: 85
Period size: 30 Copynumber: 2.0 Consensus size: 27
1217509 TTCCATAAAT
1217519 GTAATTCATTTTCCAGAATTTCAAATTTCA
1 GTAATTCATTTT-CAGAA-TTC-AATTTCA
1217549 GTAATTCATTTTCAGAATTCAATTTC
1 GTAATTCATTTTCAGAATTCAATTTC
1217575 CAAAAAACCA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
27 6 0.23
28 3 0.12
29 5 0.19
30 12 0.46
ACGTcount: A:0.32, C:0.16, G:0.07, T:0.45
Consensus pattern (27 bp):
GTAATTCATTTTCAGAATTCAATTTCA
Found at i:1220614 original size:20 final size:20
Alignment explanation
Indices: 1220573--1220614 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
1220563 TAACAAATTA
**
1220573 TTTTAAACATTAAAATGTTT
1 TTTTAAACATTAAAATACTT
1220593 TTTTAAACATTAAAATACTT
1 TTTTAAACATTAAAATACTT
1220613 TT
1 TT
1220615 CGATGCATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.07, G:0.02, T:0.50
Consensus pattern (20 bp):
TTTTAAACATTAAAATACTT
Found at i:1220657 original size:2 final size:2
Alignment explanation
Indices: 1220650--1220689 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
1220640 TTGTATTAAA
1220650 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1220690 CTTAGAAAAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1222145 original size:42 final size:42
Alignment explanation
Indices: 1222094--1222277 Score: 287
Period size: 42 Copynumber: 4.3 Consensus size: 42
1222084 CATATTCGTA
*
1222094 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
* * *
1222136 TTGCGATAGTCAAAGTTCGCATTGCGATTTATTCTAAATTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
* *
1222178 TTGCAATTTATTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGA--TAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
*
1222222 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
1222264 TTGCGATAGTCCAA
1 TTGCGATAGTCCAA
1222278 AATCGCAACG
Statistics
Matches: 127, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
42 90 0.71
44 37 0.29
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.37
Consensus pattern (42 bp):
TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
Found at i:1222211 original size:86 final size:86
Alignment explanation
Indices: 1222103--1222267 Score: 294
Period size: 86 Copynumber: 1.9 Consensus size: 86
1222093 ATTGCGATAG
*
1222103 TCCAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCAAAGTTCGCATTGCGATTTAT
1 TCCAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCAAAGTTCGCATTGCGATTTAT
*
1222168 TCTAAATTCGTTGCAATTTAT
66 TCCAAATTCGTTGCAATTTAT
* *
1222189 TCCAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTAT
1 TCCAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCAAAGTTCGCATTGCGATTTAT
1222254 TCCAAATTCGTTGC
66 TCCAAATTCGTTGC
1222268 GATAGTCCAA
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
86 75 1.00
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.38
Consensus pattern (86 bp):
TCCAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCAAAGTTCGCATTGCGATTTAT
TCCAAATTCGTTGCAATTTAT
Found at i:1222374 original size:6 final size:6
Alignment explanation
Indices: 1222363--1222399 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
1222353 GACACGTATT
*
1222363 ACCACG ACCACG ACCACG ACCCCG ACC-CG ACC-CG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
1222400 CGAGACGAGA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
5 10 0.33
6 20 0.67
ACGTcount: A:0.27, C:0.57, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:1223057 original size:21 final size:21
Alignment explanation
Indices: 1223031--1223113 Score: 139
Period size: 21 Copynumber: 4.0 Consensus size: 21
1223021 CGTTGCGATT
*
1223031 TTGGACTATCGCAATGTGAAC
1 TTGGACTATCGCAATGCGAAC
1223052 TTGGACTATCGCAATGCGAAC
1 TTGGACTATCGCAATGCGAAC
*
1223073 TTCGACTATCGCAATGCGAAC
1 TTGGACTATCGCAATGCGAAC
*
1223094 TTGGACTATCGCAATACGAA
1 TTGGACTATCGCAATGCGAA
1223114 TATGTAAATC
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 58 1.00
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.25
Consensus pattern (21 bp):
TTGGACTATCGCAATGCGAAC
Found at i:1223155 original size:21 final size:21
Alignment explanation
Indices: 1223122--1223257 Score: 154
Period size: 21 Copynumber: 6.5 Consensus size: 21
1223112 AATATGTAAA
*
1223122 TCGCAATGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCGAAGT
* *
1223143 TCGCATTGAGATAGTCG-ACT
1 TCGCATTGCGATAGTCGAAGT
*
1223163 ATCGCATTGCGAT-TTAC-ATA-T
1 -TCGCATTGCGATAGT-CGA-AGT
*
1223184 TCGCATTGCGATAGTCCAAGT
1 TCGCATTGCGATAGTCGAAGT
*
1223205 TCGCATTGCGATAGTCCAAGT
1 TCGCATTGCGATAGTCGAAGT
1223226 TCGCATTGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCGAAGT
*
1223247 TCGCGTTGCGA
1 TCGCATTGCGA
1223258 ATCTGGAAAC
Statistics
Matches: 100, Mismatches: 8, Indels: 14
0.82 0.07 0.11
Matches are distributed among these distances:
20 17 0.17
21 82 0.82
22 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.29
Consensus pattern (21 bp):
TCGCATTGCGATAGTCGAAGT
Found at i:1223163 original size:62 final size:62
Alignment explanation
Indices: 1223097--1223220 Score: 155
Period size: 62 Copynumber: 2.0 Consensus size: 62
1223087 TGCGAACTTG
*
1223097 GACTATCGCAATACGAATATGTA-A-A-TCGCAATGCGATAGTCGAAGTTCGCATTGAGATAGTC
1 GACTATCGCAATACG-AT-T-TACATATTCGCAATGCGATAGTCCAAGTTCGCATTGAGATAGTC
* * * *
1223159 GACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTC
1 GACTATCGCAATACGATTTACATATTCGCAATGCGATAGTCCAAGTTCGCATTGAGATAGTC
1223221 CAAGTTCGCA
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
59 2 0.04
60 2 0.04
61 3 0.06
62 47 0.87
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (62 bp):
GACTATCGCAATACGATTTACATATTCGCAATGCGATAGTCCAAGTTCGCATTGAGATAGTC
Found at i:1234665 original size:21 final size:22
Alignment explanation
Indices: 1234641--1234695 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 22
1234631 CCCCTTGTTA
1234641 TGTATCGATACA-CCTTGAATG
1 TGTATCGATACATCCTTGAATG
*
1234662 TGTA-CAGATATATTCCTTGAATG
1 TGTATC-GATACA-TCCTTGAATG
*
1234685 TGCATCGATAC
1 TGTATCGATAC
1234696 CCATCAAGGG
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
20 1 0.04
21 9 0.33
23 16 0.59
24 1 0.04
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (22 bp):
TGTATCGATACATCCTTGAATG
Found at i:1236566 original size:15 final size:15
Alignment explanation
Indices: 1236548--1236582 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
1236538 ACATTTTGAA
*
1236548 TGTTTTGGATTTGTG
1 TGTTTTGGATATGTG
*
1236563 TGTTTTGGATATGTT
1 TGTTTTGGATATGTG
1236578 TGTTT
1 TGTTT
1236583 GAATGGTTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.09, C:0.00, G:0.29, T:0.63
Consensus pattern (15 bp):
TGTTTTGGATATGTG
Found at i:1239800 original size:2 final size:2
Alignment explanation
Indices: 1239793--1239855 Score: 126
Period size: 2 Copynumber: 31.5 Consensus size: 2
1239783 GATTATCCAG
1239793 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1239835 AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
1239856 GAGGGATAGT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1243706 original size:26 final size:24
Alignment explanation
Indices: 1243655--1243709 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
1243645 AAAAACTAAG
1243655 GAGGAAAAGAATATTTTCGAAGGA
1 GAGGAAAAGAATATTTTCGAAGGA
**
1243679 GAGGAAAAGAATATTTTTTAAGGA
1 GAGGAAAAGAATATTTTCGAAGGA
1243703 GA-GAAAA
1 GAGGAAAA
1243710 TATTTTTCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
23 5 0.17
24 24 0.83
ACGTcount: A:0.49, C:0.02, G:0.27, T:0.22
Consensus pattern (24 bp):
GAGGAAAAGAATATTTTCGAAGGA
Found at i:1243713 original size:20 final size:20
Alignment explanation
Indices: 1243688--1243729 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
1243678 AGAGGAAAAG
*
1243688 AATATTTTTTAAG-GAGAGAA
1 AATATTTTTCAAGAGA-AGAA
1243708 AATATTTTTCAAGAGAAGAA
1 AATATTTTTCAAGAGAAGAA
1243728 AA
1 AA
1243730 AGCTCTTGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 18 0.90
21 2 0.10
ACGTcount: A:0.50, C:0.02, G:0.17, T:0.31
Consensus pattern (20 bp):
AATATTTTTCAAGAGAAGAA
Found at i:1244047 original size:18 final size:19
Alignment explanation
Indices: 1244024--1244061 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
1244014 TATCCTACTA
1244024 ATATTTAAATTA-AATAAT
1 ATATTTAAATTACAATAAT
*
1244042 ATATTTAATTTACAATAAT
1 ATATTTAAATTACAATAAT
1244061 A
1 A
1244062 AAAAAAGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (19 bp):
ATATTTAAATTACAATAAT
Found at i:1246674 original size:16 final size:16
Alignment explanation
Indices: 1246645--1246677 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1246635 AAAATTCGTT
1246645 TTAATATTTTTTAAAA
1 TTAATATTTTTTAAAA
1246661 TTAAT-TTTTATTAAAA
1 TTAATATTTT-TTAAAA
1246677 T
1 T
1246678 AACAAATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TTAATATTTTTTAAAA
Found at i:1252571 original size:30 final size:30
Alignment explanation
Indices: 1252535--1252604 Score: 140
Period size: 30 Copynumber: 2.3 Consensus size: 30
1252525 TAGTTTTTGT
1252535 TGATGTGGCACTTAACCCCGTTAACTTTTC
1 TGATGTGGCACTTAACCCCGTTAACTTTTC
1252565 TGATGTGGCACTTAACCCCGTTAACTTTTC
1 TGATGTGGCACTTAACCCCGTTAACTTTTC
1252595 TGATGTGGCA
1 TGATGTGGCA
1252605 TCTTCTTCTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.36
Consensus pattern (30 bp):
TGATGTGGCACTTAACCCCGTTAACTTTTC
Found at i:1253555 original size:11 final size:11
Alignment explanation
Indices: 1253537--1253573 Score: 67
Period size: 11 Copynumber: 3.5 Consensus size: 11
1253527 TAATAAAATT
1253537 ATAA-GATTTG
1 ATAATGATTTG
1253547 ATAATGATTTG
1 ATAATGATTTG
1253558 ATAATGATTTG
1 ATAATGATTTG
1253569 ATAAT
1 ATAAT
1253574 AATGTTTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 4 0.15
11 22 0.85
ACGTcount: A:0.41, C:0.00, G:0.16, T:0.43
Consensus pattern (11 bp):
ATAATGATTTG
Found at i:1253577 original size:14 final size:13
Alignment explanation
Indices: 1253547--1253591 Score: 53
Period size: 11 Copynumber: 3.7 Consensus size: 13
1253537 ATAAGATTTG
1253547 ATAATGATTTG--
1 ATAATGATTTGTA
1253558 ATAATGATTTGATA
1 ATAATGATTTG-TA
1253572 ATAATG-TTT-TA
1 ATAATGATTTGTA
1253583 ATAATGATT
1 ATAATGATT
1253592 ACTACTAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
11 19 0.63
12 2 0.07
13 3 0.10
14 6 0.20
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (13 bp):
ATAATGATTTGTA
Found at i:1254382 original size:441 final size:441
Alignment explanation
Indices: 1253560--1254887 Score: 1946
Period size: 441 Copynumber: 3.0 Consensus size: 441
1253550 ATGATTTGAT
* * *
1253560 AATGATTTGATAATAATGTTTTAATAATGATTACTACTAATTTTAAACAAATAACAAATGAATTT
1 AATGATTTGATAAGAATGTTTTAATAATGATTACTACTAATTTTAAACAAATAACAAATTAGTTT
** * *
1253625 ATAATTGTTGTCGATGCTAGGGTGTTGTTGAATGATAATGTCGAGGCGGACGTCTGAT-TCGTTG
66 ATAATTGTTGTCGATGCCGGGGTGTTGTTGAATGATAATGTCGGGGCAGACGTCTGATGT-GTTG
* * *
1253689 TGGTTGTTGCGGTTGCTCAGAAGTATGGTACCCATCCTCTTCATTCATTGGGGGCATTTCAACTG
130 TGGTCGTTGCGGTTGCTCAGGAGTATGGTACCCATCCTCCTCATTCATTGGGGGCATTTCAACTG
* *
1253754 GTGTTGTAAATATATTCCAACCACTATACTCTACCATTCCACCAGTTTGCTCTTCCATCCCACTT
195 GTGTTGTAAATATATTCCAACCACTATGCTCTACCATTCCACCAGTTTGCTCTTTCATCCCACTT
*
1253819 GGAAACGATGACAGACAAATACTGGTATTTGACATCATAGATGTCATTTGGTCAAAGTCATACGT
260 GGAAACGATGACTGACAAATACTGGTATTTGACATCATAGATGTCATTTGGTCAAAGTCATACGT
* * * *
1253884 CGAATCAAATATGGGAGAGTAGATGGGTGCGTGAGGCTGCACAAACTCTGGTACGTATGCCGGGA
325 CGACTCAAACATGGGAGAGTAGATGGGTGCCTGAGGCTGCACAAACTCTGGTACGTATGTCGGGA
* *
1253949 -AAGTAGAGTCATCAGATGCGCGATGCAAAGATCCCGCTTCAGGTTATCGGTG
390 CAA-TAGAGTCATCAGATGCGCGATGCAACGATCCCGCTTCAGGTTACCGGTG
*
1254001 AATGATTTGATAAGAATGTTTTAATAATGATTACTACTAATTTTAAACATATAACAAATTAGTTT
1 AATGATTTGATAAGAATGTTTTAATAATGATTACTACTAATTTTAAACAAATAACAAATTAGTTT
* *
1254066 ATAATTGTTG-CTGACGCCGGGGTGTTGTTGAATGATAATGTCGGGGCAGACGTCTGGTGTGTTG
66 ATAATTGTTGTC-GATGCCGGGGTGTTGTTGAATGATAATGTCGGGGCAGACGTCTGATGTGTTG
*
1254130 TGGTCGTTGCGGTTGCTCAGGAGTATGGTACCCATCCTCCTCATTCATTGGGGGAATTTCAACTG
130 TGGTCGTTGCGGTTGCTCAGGAGTATGGTACCCATCCTCCTCATTCATTGGGGGCATTTCAACTG
*
1254195 GTGTTGTAAATATATTTCAACCACTATGCTCTACCATTCCACCAGTTTGCTCTTTCATCCCACTT
195 GTGTTGTAAATATATTCCAACCACTATGCTCTACCATTCCACCAGTTTGCTCTTTCATCCCACTT
* * *
1254260 GGAAATGATGACTGACAAATACAGGTATTTGACATCATATATGTCATTTGGTCAAAGTCATACGT
260 GGAAACGATGACTGACAAATACTGGTATTTGACATCATAGATGTCATTTGGTCAAAGTCATACGT
* *
1254325 CGACTCAAACATGGGAGAGTATATGGGTGCCTGATGCTGCACAAACTCTGGTACGTATGTCGGGA
325 CGACTCAAACATGGGAGAGTAGATGGGTGCCTGAGGCTGCACAAACTCTGGTACGTATGTCGGGA
**
1254390 CAATAGAGTCATTTGATGCGCGATGCAACGATCCCGCTTCAGGTTACCGGTG
390 CAATAGAGTCATCAGATGCGCGATGCAACGATCCCGCTTCAGGTTACCGGTG
*
1254442 AATGATTTGATAAGAATGCTTTAATAATGATTACTACTAATTTTAAACAAATAACAAA-TATGTT
1 AATGATTTGATAAGAATGTTTTAATAATGATTACTACTAATTTTAAACAAATAACAAATTA-GTT
* * * *
1254506 TATAATTGTTGTCGATGTCGGGGTGTTGTTGAATGATAATGTCGGGG-TGAACGTCTTATGCGTT
65 TATAATTGTTGTCGATGCCGGGGTGTTGTTGAATGATAATGTCGGGGCAG-ACGTCTGATGTGTT
* * * *
1254570 GTGGTCATTGCGGTTGCTCAGGAGTATGATACCCATCATTCTCATTCATTGGGGGCATTTCAACT
129 GTGGTCGTTGCGGTTGCTCAGGAGTATGGTACCCATCCTCCTCATTCATTGGGGGCATTTCAACT
*
1254635 GGTGTTGTAAATATATTCCAACCACTATGCTCTACCATTTCACCAGTTTGCTCTTCCATCCCACT
194 GGTGTTGTAAATATATTCCAACCACTATGCTCTACCATTCCACCAGTTTG-------------C-
* *
1254700 AGTTTTCTCTTCCATCCCACTTGGAAACGAAGACTGACAAATGCTGGTATTTGACATCATAGATG
245 -----TCT-TT-CATCCCACTTGGAAACGATGACTGACAAATACTGGTATTTGACATCATAGATG
* * *
1254765 TCATTTGGTCAAAGTCATACGTCGACTCAAACATGGAAGAGTAGATGGGTGCTTGAGGCTGCGCA
303 TCATTTGGTCAAAGTCATACGTCGACTCAAACATGGGAGAGTAGATGGGTGCCTGAGGCTGCACA
* * *
1254830 AACTCTGGTACGTATGTCGGGACAATAGAGTCATCAAATGTGTGATGCAACGATCCCG
368 AACTCTGGTACGTATGTCGGGACAATAGAGTCATCAGATGCGCGATGCAACGATCCCG
1254888 ACATAGACAA
Statistics
Matches: 799, Mismatches: 61, Indels: 33
0.89 0.07 0.04
Matches are distributed among these distances:
440 4 0.01
441 624 0.78
442 4 0.01
454 1 0.00
460 3 0.00
461 2 0.00
462 161 0.20
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.32
Consensus pattern (441 bp):
AATGATTTGATAAGAATGTTTTAATAATGATTACTACTAATTTTAAACAAATAACAAATTAGTTT
ATAATTGTTGTCGATGCCGGGGTGTTGTTGAATGATAATGTCGGGGCAGACGTCTGATGTGTTGT
GGTCGTTGCGGTTGCTCAGGAGTATGGTACCCATCCTCCTCATTCATTGGGGGCATTTCAACTGG
TGTTGTAAATATATTCCAACCACTATGCTCTACCATTCCACCAGTTTGCTCTTTCATCCCACTTG
GAAACGATGACTGACAAATACTGGTATTTGACATCATAGATGTCATTTGGTCAAAGTCATACGTC
GACTCAAACATGGGAGAGTAGATGGGTGCCTGAGGCTGCACAAACTCTGGTACGTATGTCGGGAC
AATAGAGTCATCAGATGCGCGATGCAACGATCCCGCTTCAGGTTACCGGTG
Found at i:1254703 original size:21 final size:21
Alignment explanation
Indices: 1254679--1254720 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
1254669 CCATTTCACC
1254679 AGTTTGCTCTTCCATCCCACT
1 AGTTTGCTCTTCCATCCCACT
*
1254700 AGTTTTCTCTTCCATCCCACT
1 AGTTTGCTCTTCCATCCCACT
1254721 TGGAAACGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.14, C:0.38, G:0.07, T:0.40
Consensus pattern (21 bp):
AGTTTGCTCTTCCATCCCACT
Found at i:1255091 original size:26 final size:24
Alignment explanation
Indices: 1255062--1255123 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 24
1255052 AATTATTAGT
1255062 AATCATTATTAAATAATTAAATATCA
1 AATCATTATT-AATAA-TAAATATCA
* *
1255088 AATCATTAGATTAATAATAATTATTA
1 AATCATT--ATTAATAATAAATATCA
1255114 AATCATTATT
1 AATCATTATT
1255124 GGTAAAGACA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
24 3 0.09
26 21 0.66
27 5 0.16
28 3 0.09
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (24 bp):
AATCATTATTAATAATAAATATCA
Found at i:1256604 original size:10 final size:10
Alignment explanation
Indices: 1256587--1256635 Score: 50
Period size: 10 Copynumber: 5.1 Consensus size: 10
1256577 TTAGAAATAC
1256587 AAAT-ATAAA
1 AAATAATAAA
1256596 AAATAATAAA
1 AAATAATAAA
1256606 AAATAA-AATA
1 AAATAATAA-A
* *
1256616 AAAGAAGAAA
1 AAATAATAAA
1256626 AAAT-ATAAA
1 AAATAATAAA
1256635 A
1 A
1256636 TGGGTTGCCT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
9 11 0.32
10 21 0.62
11 2 0.06
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (10 bp):
AAATAATAAA
Found at i:1256610 original size:7 final size:7
Alignment explanation
Indices: 1256552--1256636 Score: 55
Period size: 8 Copynumber: 11.0 Consensus size: 7
1256542 GATGTACCTA
1256552 AAAAAAT
1 AAAAAAT
1256559 ACAAAAAT
1 A-AAAAAT
1256567 AAATAAAT
1 AAA-AAAT
1256575 AATTAGAAAT
1 AA--A-AAAT
*
1256585 ACAAATAT
1 A-AAAAAT
1256593 AAAAAAT
1 AAAAAAT
1256600 AATAAAA-
1 AA-AAAAT
1256607 AATAAAAT
1 AA-AAAAT
*
1256615 AAAAGAAG
1 AAAA-AAT
1256623 AAAAAAT
1 AAAAAAT
*
1256630 ATAAAAT
1 AAAAAAT
1256637 GGGTTGCCTC
Statistics
Matches: 64, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
7 27 0.42
8 29 0.45
9 1 0.02
10 6 0.09
11 1 0.02
ACGTcount: A:0.75, C:0.02, G:0.04, T:0.19
Consensus pattern (7 bp):
AAAAAAT
Found at i:1256616 original size:22 final size:22
Alignment explanation
Indices: 1256562--1256636 Score: 71
Period size: 22 Copynumber: 3.2 Consensus size: 22
1256552 AAAAAATACA
*
1256562 AAAATAAATAAATAATTAGAAATAC
1 AAAATAAA-AAATAA-TA-AAATAT
*
1256587 AAATATAAAAAATAATAAAAAAT
1 AAA-ATAAAAAATAATAAAATAT
*
1256610 AAAATAAAAGAAGAA-AAAATAT
1 AAAATAAAA-AATAATAAAATAT
1256632 AAAAT
1 AAAAT
1256637 GGGTTGCCTC
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
22 17 0.39
23 11 0.25
24 2 0.05
25 9 0.20
26 5 0.11
ACGTcount: A:0.75, C:0.01, G:0.04, T:0.20
Consensus pattern (22 bp):
AAAATAAAAAATAATAAAATAT
Found at i:1261269 original size:22 final size:21
Alignment explanation
Indices: 1261213--1261273 Score: 59
Period size: 24 Copynumber: 2.7 Consensus size: 21
1261203 TAAACATTAA
*
1261213 AAATAATATATATATATAAAC
1 AAATTATATATATATATAAAC
* *
1261234 ATATTAGGTAATATATATATACAC
1 AAATTA--T-ATATATATATAAAC
1261258 TAAATTATATATATAT
1 -AAATTATATATATAT
1261274 TGGTACATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
21 4 0.12
22 8 0.25
23 2 0.06
24 13 0.41
25 5 0.16
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.39
Consensus pattern (21 bp):
AAATTATATATATATATAAAC
Found at i:1261481 original size:2 final size:2
Alignment explanation
Indices: 1261470--1261633 Score: 91
Period size: 2 Copynumber: 84.0 Consensus size: 2
1261460 TACACTAAAT
**
1261470 TA TA TA -A TA TA TA CTA TGA TA TA TA -A TA TA TA TA TA CCG TA
1 TA TA TA TA TA TA TA -TA T-A TA TA TA TA TA TA TA TA TA -TA TA
* * *
1261511 -A TA TA TA -A TG TA -A CA CTA TA TA -A TA TA -A TA TA TA TA CA
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA
* * *
1261549 CA TA TA CTA TA TA CTA TA TA -A AA TA TA -A TA CTA TC TA -A TA
1 TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA -TA TA TA TA TA
*
1261589 TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA -A TA -A TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1261629 CTA TA
1 -TA TA
1261634 ATTTAAAATA
Statistics
Matches: 128, Mismatches: 14, Indels: 40
0.70 0.08 0.22
Matches are distributed among these distances:
1 12 0.09
2 103 0.80
3 13 0.10
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (2 bp):
TA
Found at i:1261560 original size:24 final size:24
Alignment explanation
Indices: 1261470--1261633 Score: 103
Period size: 24 Copynumber: 6.8 Consensus size: 24
1261460 TACACTAAAT
1261470 TATAT-AATATATACTATGAT-ATA
1 TATATAAATATATACTAT-ATAATA
*
1261493 TA-ATATATATATACCGTA-AT-ATA
1 TATATAAATATATA-C-TATATAATA
*
1261516 TAATGTAACACTATATA--ATATAATA
1 T-ATATAA-A-TATATACTATATAATA
* * *
1261541 TATATACACATATACTATATACTA
1 TATATAAATATATACTATATAATA
*
1261565 TATA-AAATATAATACTATCTAATA
1 TATATAAATAT-ATACTATATAATA
**
1261589 TATATGTATATATA-TATATATATA
1 TATATAAATATATACTATATA-ATA
1261613 TATATAATAATATATACTATA
1 TATAT-A-AATATATACTATA
1261634 ATTTAAAATA
Statistics
Matches: 108, Mismatches: 16, Indels: 30
0.70 0.10 0.19
Matches are distributed among these distances:
22 7 0.06
23 26 0.24
24 45 0.42
25 12 0.11
26 8 0.07
27 10 0.09
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (24 bp):
TATATAAATATATACTATATAATA
Found at i:1261600 original size:8 final size:8
Alignment explanation
Indices: 1261470--1261633 Score: 91
Period size: 7 Copynumber: 21.0 Consensus size: 8
1261460 TACACTAAAT
1261470 TATATA-A
1 TATATATA
1261477 TATATACTA
1 TATATA-TA
1261486 TGATATATA
1 T-ATATATA
1261495 -ATATATA
1 TATATATA
**
1261502 TATACCGTA
1 TATA-TATA
1261511 -ATATATA
1 TATATATA
*
1261518 -ATGTA-A
1 TATATATA
*
1261524 CACTATATA
1 TA-TATATA
1261533 -ATATA-A
1 TATATATA
1261539 TATATATA
1 TATATATA
* *
1261547 CACATATA
1 TATATATA
1261555 CTATATACTA
1 -TATATA-TA
*
1261565 TATA-AAA
1 TATATATA
1261572 TATA-ATA
1 TATATATA
*
1261579 CTATCTA-A
1 -TATATATA
*
1261587 TATATATG
1 TATATATA
1261595 TATATATA
1 TATATATA
1261603 TATATATA
1 TATATATA
1261611 TATATATA
1 TATATATA
1261619 -ATA-ATA
1 TATATATA
1261625 TATACTATA
1 TATA-TATA
1261634 ATTTAAAATA
Statistics
Matches: 123, Mismatches: 16, Indels: 34
0.71 0.09 0.20
Matches are distributed among these distances:
6 5 0.04
7 47 0.38
8 45 0.37
9 19 0.15
10 7 0.06
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (8 bp):
TATATATA
Found at i:1262876 original size:21 final size:21
Alignment explanation
Indices: 1262852--1262892 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
1262842 CATAACATCC
1262852 ATAACAA-CAAACTTTAAATCT
1 ATAACAATC-AACTTTAAATCT
1262873 ATAACAATCAACTTTAAATC
1 ATAACAATCAACTTTAAATC
1262893 CATTATAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.51, C:0.20, G:0.00, T:0.29
Consensus pattern (21 bp):
ATAACAATCAACTTTAAATCT
Found at i:1271313 original size:229 final size:229
Alignment explanation
Indices: 1270909--1271362 Score: 707
Period size: 229 Copynumber: 2.0 Consensus size: 229
1270899 GATCCAGAGC
* *
1270909 AGATAAAATTAATGCCAAGAAGAAATACAGAGAGCGAAAATTCAGAATAAGTTGCTTTACCTTGG
1 AGATAAAATTAATGCCAAGAAGAAAGACAGAGAGAGAAAATTCAGAATAAGTTGCTTTACCTTGG
* * *
1270974 AGGAGAATCGGAAGATTAGCCTGGAAGAGAAGAAAAAATAGAGCTTGGACAGAGGAAGGTGAGGC
66 AGGAGAATCAGAAGATTAGCCTGAAAGAGAAGAAAAAAGAGAGCTTGGACAGAGGAAGGTGAGGC
1271039 GAGGTGGCGGTGGTTTTAACGACAGAAGAGAAGGAAGTCGAGCGTGATGCTGCGA-TTGTGATGA
131 GAGGTGGCGGTGGTTTTAACGACAGAAGAGAAGGAAGTCGAGCGTGATGCTG-GACTTGTGATGA
* *
1271103 TGGTTGCCCAGGGGTGACTTCACTGTGATGGGAGT
195 TGGTTGCACAGGGGTGACTTCACTATGATGGGAGT
*
1271138 AGATAAAATTAATGCCAAGAAGAAAGATAGAGAGAGAAAATTCAGAATAAGTTGCTTTACCTTGG
1 AGATAAAATTAATGCCAAGAAGAAAGACAGAGAGAGAAAATTCAGAATAAGTTGCTTTACCTTGG
** *
1271203 A-GATGAATCAGAAGATT-GACCTGAAAGAGAAGCGAAAAGAGAGTTTGGACAGAGGAAGGTGAG
66 AGGA-GAATCAGAAGATTAG-CCTGAAAGAGAAGAAAAAAGAGAGCTTGGACAGAGGAAGGTGAG
* * * *
1271266 GCGAGGTGGCGGTGGTTTTAACGACGGAAGAGAATGAAGTGGAGCGTGATGTTGGACTTGTGATG
129 GCGAGGTGGCGGTGGTTTTAACGACAGAAGAGAAGGAAGTCGAGCGTGATGCTGGACTTGTGATG
**
1271331 ATGGTTGCATGGGGGTGACTTCACTATGATGG
194 ATGGTTGCACAGGGGTGACTTCACTATGATGG
1271363 TTGGGCGTTG
Statistics
Matches: 205, Mismatches: 17, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
228 5 0.02
229 200 0.98
ACGTcount: A:0.34, C:0.11, G:0.34, T:0.21
Consensus pattern (229 bp):
AGATAAAATTAATGCCAAGAAGAAAGACAGAGAGAGAAAATTCAGAATAAGTTGCTTTACCTTGG
AGGAGAATCAGAAGATTAGCCTGAAAGAGAAGAAAAAAGAGAGCTTGGACAGAGGAAGGTGAGGC
GAGGTGGCGGTGGTTTTAACGACAGAAGAGAAGGAAGTCGAGCGTGATGCTGGACTTGTGATGAT
GGTTGCACAGGGGTGACTTCACTATGATGGGAGT
Found at i:1271597 original size:42 final size:42
Alignment explanation
Indices: 1271463--1271602 Score: 142
Period size: 43 Copynumber: 3.3 Consensus size: 42
1271453 TTTATAATAC
* *
1271463 AAACGCCACT-AAGGTACATAACTATTGCGACATTTATTACAAA
1 AAACGCCACTAAAGTTACATGACTATTGCGACATTTA-TAC-AA
* * *
1271506 AAATGCCACTAAA-TTACACGATTATTGCGACATTTATTACAA
1 AAACGCCACTAAAGTTACATGACTATTGCGACATTTA-TACAA
* **
1271548 AATCGCCACTAAAGTTACATGACTATTGCGATGTTTGA-ACAA
1 AAACGCCACTAAAGTTACATGACTATTGCGACATTT-ATACAA
*
1271590 AAACGCCAATAAA
1 AAACGCCACTAAA
1271603 ATATGAGTAT
Statistics
Matches: 81, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
42 28 0.35
43 50 0.62
44 3 0.04
ACGTcount: A:0.41, C:0.20, G:0.12, T:0.26
Consensus pattern (42 bp):
AAACGCCACTAAAGTTACATGACTATTGCGACATTTATACAA
Found at i:1271686 original size:41 final size:41
Alignment explanation
Indices: 1271580--1271686 Score: 101
Period size: 41 Copynumber: 2.6 Consensus size: 41
1271570 CTATTGCGAT
* *
1271580 GTTTGAACAAAAACGCCAATAAAA-TATGAGTATATAGCGGC
1 GTTTGTACAAAAACGCC-ATAAAAGTACGAGTATATAGCGGC
* * * * *
1271621 GTTTGTATATAAATGCCACT-AAAGTACGAGTTTATAGTGGC
1 GTTTGTACAAAAACGCCA-TAAAAGTACGAGTATATAGCGGC
* *
1271662 GTTTGTACACAAACACCATAAAAGT
1 GTTTGTACAAAAACGCCATAAAAGT
1271687 CTGAGTCTTT
Statistics
Matches: 52, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
40 5 0.10
41 47 0.90
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.27
Consensus pattern (41 bp):
GTTTGTACAAAAACGCCATAAAAGTACGAGTATATAGCGGC
Found at i:1275016 original size:18 final size:18
Alignment explanation
Indices: 1274990--1275032 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
1274980 ATTTTGGTAC
1274990 CGATACTCAAGGGAGCAT
1 CGATACTCAAGGGAGCAT
* * *
1275008 CGGTACTCAATGGAGTAT
1 CGATACTCAAGGGAGCAT
1275026 CGATACT
1 CGATACT
1275033 AAAGAGGGTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (18 bp):
CGATACTCAAGGGAGCAT
Found at i:1276009 original size:22 final size:23
Alignment explanation
Indices: 1275984--1276027 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
1275974 AAAATAAATA
1275984 AATAAAAAATAA-AAAGAATATG
1 AATAAAAAATAATAAAGAATATG
* *
1276006 AATAAAATATAATAAATAATAT
1 AATAAAAAATAATAAAGAATAT
1276028 ATACTACTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.25
Consensus pattern (23 bp):
AATAAAAAATAATAAAGAATATG
Found at i:1276092 original size:26 final size:26
Alignment explanation
Indices: 1276056--1276125 Score: 106
Period size: 26 Copynumber: 2.7 Consensus size: 26
1276046 ATATATAAAT
*
1276056 ATATATATATTTTTTAAAACTATATA
1 ATATATATATTTTTAAAAACTATATA
*
1276082 ATATATATATTTTCAAAAACTATATA
1 ATATATATATTTTTAAAAACTATATA
*
1276108 ATATATAT-TTTTTCAAAA
1 ATATATATATTTTTAAAAA
1276126 TATTTTCAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
25 8 0.20
26 32 0.80
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (26 bp):
ATATATATATTTTTAAAAACTATATA
Found at i:1276160 original size:39 final size:39
Alignment explanation
Indices: 1276088--1276235 Score: 194
Period size: 39 Copynumber: 3.8 Consensus size: 39
1276078 TATAATATAT
*
1276088 ATATTTTCAAAAACTATATA--ATATATATTTTTTCAAA
1 ATATTTTCAAAAACTATATATTATATATATATTTTCAAA
1276125 ATATTTTCAAAAACTATATATTATATATATATTTTCAAA
1 ATATTTTCAAAAACTATATATTATATATATATTTTCAAA
* * *
1276164 ATATTTTCAAAAACTATATATTATATATATGTTCTGAAA
1 ATATTTTCAAAAACTATATATTATATATATATTTTCAAA
* * *
1276203 AT-TTTATAAAAAAATATGTATTATATACTATAT
1 ATATTT-TCAAAAACTATATATTATATA-TATAT
1276236 ATATACTAAA
Statistics
Matches: 99, Mismatches: 8, Indels: 5
0.88 0.07 0.04
Matches are distributed among these distances:
37 20 0.20
38 3 0.03
39 72 0.73
40 4 0.04
ACGTcount: A:0.46, C:0.07, G:0.02, T:0.45
Consensus pattern (39 bp):
ATATTTTCAAAAACTATATATTATATATATATTTTCAAA
Found at i:1277245 original size:20 final size:21
Alignment explanation
Indices: 1277209--1277259 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 21
1277199 CCAAAGAAAG
1277209 AAAAATGAAAATAAATA-AATA
1 AAAAAT-AAAATAAATAGAATA
1277230 AAAAATAAAA-AGAATATGAATA
1 AAAAATAAAATA-AATA-GAATA
*
1277252 AAATATAA
1 AAAAATAA
1277260 TAAATAATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 1 0.04
20 8 0.31
21 6 0.23
22 11 0.42
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.20
Consensus pattern (21 bp):
AAAAATAAAATAAATAGAATA
Found at i:1277350 original size:26 final size:26
Alignment explanation
Indices: 1277296--1277368 Score: 123
Period size: 26 Copynumber: 2.9 Consensus size: 26
1277286 TAATATATAA
*
1277296 ATAT-ATATATATATTTT-TAAAACT
1 ATATAATATATATATTTTCAAAAACT
1277320 ATATAATATATATATTTTCAAAAACT
1 ATATAATATATATATTTTCAAAAACT
1277346 ATATAATATATATATTTTCAAAA
1 ATATAATATATATATTTTCAAAA
1277369 TATTTTCAAA
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
24 4 0.09
25 13 0.28
26 29 0.63
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.45
Consensus pattern (26 bp):
ATATAATATATATATTTTCAAAAACT
Found at i:1277360 original size:37 final size:37
Alignment explanation
Indices: 1277319--1277438 Score: 134
Period size: 37 Copynumber: 3.1 Consensus size: 37
1277309 TTTTTAAAAC
* *
1277319 TATATAATATATATATTTTCAAAAACTATATAATATA
1 TATATATTATAAATATTTTCAAAAACTATATAATATA
*
1277356 TATATTTTCA-AAATATTTTCAAAAACTATATTATATATA
1 TATATATT-ATAAATATTTTCAAAAACTATA-TA-ATATA
* * *
1277395 TATATATTTTCAAAATGTTTTCAAAAACTATATATTATA
1 TATATATTAT--AAATATTTTCAAAAACTATATAATATA
1277434 TATAT
1 TATAT
1277439 GTTCTGAAAA
Statistics
Matches: 70, Mismatches: 7, Indels: 10
0.80 0.08 0.11
Matches are distributed among these distances:
37 25 0.36
38 3 0.04
39 21 0.30
40 2 0.03
41 19 0.27
ACGTcount: A:0.47, C:0.07, G:0.01, T:0.46
Consensus pattern (37 bp):
TATATATTATAAATATTTTCAAAAACTATATAATATA
Found at i:1277408 original size:41 final size:40
Alignment explanation
Indices: 1277331--1277438 Score: 170
Period size: 41 Copynumber: 2.8 Consensus size: 40
1277321 TATAATATAT
1277331 ATATTTTCAAAAAC--TATATA-ATATATATATTTTCAAA
1 ATATTTTCAAAAACTATATATATATATATATATTTTCAAA
1277368 ATATTTTCAAAAACTATATTATATATATATATATTTTCAAA
1 ATATTTTCAAAAACTATA-TATATATATATATATTTTCAAA
*
1277409 ATGTTTTCAAAAACTATATAT-TATATATAT
1 ATATTTTCAAAAACTATATATATATATATAT
1277439 GTTCTGAAAA
Statistics
Matches: 66, Mismatches: 1, Indels: 6
0.90 0.01 0.08
Matches are distributed among these distances:
37 14 0.21
39 11 0.17
40 7 0.11
41 34 0.52
ACGTcount: A:0.46, C:0.07, G:0.01, T:0.45
Consensus pattern (40 bp):
ATATTTTCAAAAACTATATATATATATATATATTTTCAAA
Found at i:1281548 original size:16 final size:15
Alignment explanation
Indices: 1281512--1281608 Score: 81
Period size: 16 Copynumber: 6.3 Consensus size: 15
1281502 AGATCAAATC
*
1281512 AAAGCAAAG-AGAAA
1 AAAGCAAAGAAAAAA
1281526 AAA-CAAAGAAATAAA
1 AAAGCAAAGAAA-AAA
*
1281541 AAAGCAAATAAAAAA
1 AAAGCAAAGAAAAAA
*
1281556 TAGAGCAAAGAAAAATA
1 -AAAGCAAAGAAAAA-A
* *
1281573 ACGAGCAAAGAGAAAA
1 A-AAGCAAAGAAAAAA
*
1281589 GAAGCAAAGAAAAAA
1 AAAGCAAAGAAAAAA
1281604 TAAAG
1 -AAAG
1281609 AAGCAAAGAG
Statistics
Matches: 67, Mismatches: 9, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
13 5 0.07
14 4 0.06
15 21 0.31
16 24 0.36
17 13 0.19
ACGTcount: A:0.71, C:0.07, G:0.16, T:0.05
Consensus pattern (15 bp):
AAAGCAAAGAAAAAA
Found at i:1281588 original size:19 final size:18
Alignment explanation
Indices: 1281551--1281623 Score: 61
Period size: 15 Copynumber: 4.3 Consensus size: 18
1281541 AAAGCAAATA
1281551 AAAAAT-AGAGC-AA-AG
1 AAAAATAAGAGCAAAGAG
1281566 AAAAATAACGAGCAAAGAG
1 AAAAATAA-GAGCAAAGAG
*
1281585 -AAAA-GA-AGCAAAGA-
1 AAAAATAAGAGCAAAGAG
1281599 AAAAATAAAGAAGCAAAGAG
1 AAAAAT-AAG-AGCAAAGAG
1281619 AAAAA
1 AAAAA
1281624 AGAATAAAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 15
0.73 0.03 0.24
Matches are distributed among these distances:
15 18 0.39
16 1 0.02
17 6 0.13
18 6 0.13
19 10 0.22
20 5 0.11
ACGTcount: A:0.70, C:0.07, G:0.19, T:0.04
Consensus pattern (18 bp):
AAAAATAAGAGCAAAGAG
Found at i:1281595 original size:32 final size:30
Alignment explanation
Indices: 1281514--1281638 Score: 112
Period size: 32 Copynumber: 4.0 Consensus size: 30
1281504 ATCAAATCAA
*
1281514 AGCAAAGAGAAAAAA-CAAAGAAATAA-AAA
1 AGCAAAGAGAAAAAAGCAAAGAAA-AATAAG
* *
1281543 AGCAAATAAAAAATAGAGCAAAGAAAAATAACG
1 AGCAAAGAGAAAA-A-AGCAAAGAAAAATAA-G
1281576 AGCAAAGAGAAAAGAAGCAAAGAAAAAATAAAG
1 AGCAAAGAGAAAA-AAGCAAAG-AAAAAT-AAG
*
1281609 AAGCAAAGAGAAAAAAG-AATAAAAAAATAA
1 -AGCAAAGAGAAAAAAGCAA-AGAAAAATAA
1281639 AAAGAAATAA
Statistics
Matches: 80, Mismatches: 7, Indels: 16
0.78 0.07 0.16
Matches are distributed among these distances:
29 11 0.14
30 1 0.01
31 5 0.06
32 25 0.31
33 23 0.29
34 15 0.19
ACGTcount: A:0.72, C:0.06, G:0.16, T:0.06
Consensus pattern (30 bp):
AGCAAAGAGAAAAAAGCAAAGAAAAATAAG
Found at i:1281603 original size:15 final size:14
Alignment explanation
Indices: 1281512--1281603 Score: 78
Period size: 15 Copynumber: 6.1 Consensus size: 14
1281502 AGATCAAATC
*
1281512 AAAGCAAAGAGAAA
1 AAAGCAAAGAAAAA
1281526 AAA-CAAAGAAATAAA
1 AAAGCAAAG-AA-AAA
*
1281541 AAAGCAAATAAAAA
1 AAAGCAAAGAAAAA
1281555 ATAGAGCAAAGAAAAA
1 A-A-AGCAAAGAAAAA
1281571 TAACGAGCAAAGAGAAAA
1 -AA--AGCAAAGA-AAAA
*
1281589 GAAGCAAAGAAAAA
1 AAAGCAAAGAAAAA
1281603 A
1 A
1281604 TAAAGAAGCA
Statistics
Matches: 65, Mismatches: 5, Indels: 16
0.76 0.06 0.19
Matches are distributed among these distances:
13 5 0.08
14 12 0.18
15 17 0.26
16 16 0.25
17 11 0.17
18 4 0.06
ACGTcount: A:0.72, C:0.08, G:0.16, T:0.04
Consensus pattern (14 bp):
AAAGCAAAGAAAAA
Found at i:1281644 original size:34 final size:34
Alignment explanation
Indices: 1281513--1281639 Score: 121
Period size: 33 Copynumber: 4.0 Consensus size: 34
1281503 GATCAAATCA
*
1281513 AAGCAAAGAGAAAA-AA-CAAAG---AAATAAAA
1 AAGCAAAGAGAAAAGAAGCAAAGAAAAAATAAAG
* * * *
1281542 AAGCAAATAAAAAATAGAGCAAAG-AAAAATAACG
1 AAGCAAAGAGAAAAGA-AGCAAAGAAAAAATAAAG
1281576 -AGCAAAGAGAAAAGAAGCAAAGAAAAAATAAAG
1 AAGCAAAGAGAAAAGAAGCAAAGAAAAAATAAAG
1281609 AAGCAAAGAGAAAA-AAG-AATA-AAAAAATAAA
1 AAGCAAAGAGAAAAGAAGCAA-AGAAAAAATAAA
1281640 AAGAAATAAA
Statistics
Matches: 82, Mismatches: 8, Indels: 13
0.80 0.08 0.13
Matches are distributed among these distances:
29 12 0.15
30 1 0.01
31 1 0.01
32 24 0.29
33 25 0.30
34 19 0.23
ACGTcount: A:0.72, C:0.06, G:0.16, T:0.06
Consensus pattern (34 bp):
AAGCAAAGAGAAAAGAAGCAAAGAAAAAATAAAG
Found at i:1282607 original size:44 final size:43
Alignment explanation
Indices: 1282540--1282666 Score: 157
Period size: 44 Copynumber: 2.9 Consensus size: 43
1282530 TGATGAAGCA
1282540 AGAAATGAT-GAATGTTGGAGCATTTTTGAAGACCCATATCATCC
1 AGAAATGATAG-ATGTTGG-GCATTTTTGAAGACCCATATCATCC
* * *
1282584 ATAAATGATAGATGTTGAGGCATTTTTGAAGGCCCATATCATCT
1 AGAAATGATAGATGTTG-GGCATTTTTGAAGACCCATATCATCC
* * *
1282628 AGAAATGATAAATATTGGGGCATTTTTAAAGACCCATAT
1 AGAAATGATAGATGTT-GGGCATTTTTGAAGACCCATAT
1282667 ATTCGAGGAA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
44 69 0.96
45 3 0.04
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.31
Consensus pattern (43 bp):
AGAAATGATAGATGTTGGGCATTTTTGAAGACCCATATCATCC
Found at i:1283304 original size:139 final size:140
Alignment explanation
Indices: 1283049--1283400 Score: 397
Period size: 139 Copynumber: 2.5 Consensus size: 140
1283039 TCTTTTGAAA
* * *
1283049 CAAATTATCCCTAAAGACGGCTAGACGTCCTCATCATGTAGGAACAATATTGTCCACTGA-TCAG
1 CAAATTATCCCTAAAGACGGCTAGACTTCCTCATCACGTAGGAACAATATCGTCCACTGACT-AG
* * ** *
1283113 ATCTCCTC-ATCACGTAGGAGCAGTGTCAACCTCAGATGACCAGACTTCCTCATCACGTAGAAAC
65 ATCTCTTCAATCACGTAGGAACAGTGTCAACCTCAGACAACCAAACTTCCTCATCACGTAGAAAC
*
1283177 CGTGTTGTCTC
130 CATGTTGTCTC
* * *
1283188 CAAATTATCCCTAAAGACGACTAGACTTCCTCATCACGTAGGACCAATATCGTCCACCGACTAGA
1 CAAATTATCCCTAAAGACGGCTAGACTTCCTCATCACGTAGGAACAATATCGTCCACTGACTAGA
* * * * * * * **
1283253 TCTCTTCAATGA-GTAGGAACAGTGTCATCCTCAGGCAATCAAATTTTCTCATCACGTAGGAATT
66 TCTCTTCAATCACGTAGGAACAGTGTCAACCTCAGACAACCAAACTTCCTCATCACGTAGAAACC
1283317 ATGTTGTCTC
131 ATGTTGTCTC
* * * * * * *
1283327 CAATTTATCCCTAAAGATGGCTA-AATATCCTCATTACATAGGAACAATGTCGTCCACTGACCAG
1 CAAATTATCCCTAAAGACGGCTAGACT-TCCTCATCACGTAGGAACAATATCGTCCACTGACTAG
*
1283391 ATCTATTCAA
65 ATCTCTTCAA
1283401 CGCGAAAGAG
Statistics
Matches: 178, Mismatches: 32, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
138 2 0.01
139 172 0.97
140 4 0.02
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (140 bp):
CAAATTATCCCTAAAGACGGCTAGACTTCCTCATCACGTAGGAACAATATCGTCCACTGACTAGA
TCTCTTCAATCACGTAGGAACAGTGTCAACCTCAGACAACCAAACTTCCTCATCACGTAGAAACC
ATGTTGTCTC
Found at i:1283443 original size:139 final size:139
Alignment explanation
Indices: 1283049--1283470 Score: 346
Period size: 139 Copynumber: 3.0 Consensus size: 139
1283039 TCTTTTGAAA
* ** ** * * *
1283049 CAAATTATCCCTAAAGACGGCTAGACGTCCTCATCATGTAGGAACAATATTGTCCACTGATCAGA
1 CAAATTATCCCTAAAGACGACTAGAATTCCTCATCACATAGGAACAATATCGTCCACCGACCAGA
** * * * * * ** *
1283114 TCTCCTCATC-ACGTAGGAGCAGTGTCAACCTCAGATGACCAGACTTCCTCATCACGTAGAAACC
66 TCTATTCAACGA-GAAAGAACAGTGTCATCCTCAGACAATCAGACTTCCTCATCACGTAGAAACC
*
1283178 GTGTTGTCTC
130 ATGTTGTCTC
* * * *
1283188 CAAATTATCCCTAAAGACGACTAGACTTCCTCATCACGTAGGACCAATATCGTCCACCGACTAGA
1 CAAATTATCCCTAAAGACGACTAGAATTCCTCATCACATAGGAACAATATCGTCCACCGACCAGA
* * * * * * * * * **
1283253 TCTCTTCAATGAGTAGGAACAGTGTCATCCTCAGGCAATCAAATTTTCTCATCACGTAGGAATTA
66 TCTATTCAACGAGAAAGAACAGTGTCATCCTCAGACAATCAGACTTCCTCATCACGTAGAAACCA
1283318 TGTTGTCTC
131 TGTTGTCTC
* * * * * *
1283327 CAATTTATCCCTAAAGATGGCTA-AATATCCTCATTACATAGGAACAATGTCGTCCACTGACCAG
1 CAAATTATCCCTAAAGACGACTAGAAT-TCCTCATCACATAGGAACAATATCGTCCACCGACCAG
* * * * * * **
1283391 ATCTATTCAACGCGAAAGAGCGGTGTCATCCTTATACAATTAGACTTCCTCATTGCGTTA-AAAC
65 ATCTATTCAACGAGAAAGAACAGTGTCATCCTCAGACAATCAGACTTCCTCATCACG-TAGAAAC
* *
1283455 CGTGTTGTCTT
129 CATGTTGTCTC
1283466 CAAAT
1 CAAAT
1283471 CATCTCCAAA
Statistics
Matches: 224, Mismatches: 56, Indels: 6
0.78 0.20 0.02
Matches are distributed among these distances:
138 2 0.01
139 219 0.98
140 3 0.01
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (139 bp):
CAAATTATCCCTAAAGACGACTAGAATTCCTCATCACATAGGAACAATATCGTCCACCGACCAGA
TCTATTCAACGAGAAAGAACAGTGTCATCCTCAGACAATCAGACTTCCTCATCACGTAGAAACCA
TGTTGTCTC
Found at i:1284948 original size:114 final size:118
Alignment explanation
Indices: 1284796--1285107 Score: 391
Period size: 126 Copynumber: 2.6 Consensus size: 118
1284786 TTATTTATAA
* * * * * *
1284796 TATTCTATTAGACCTTGTGGTGAACAGATCCGGGGTATGATCCACATTATTACGGTTCAGACTCT
1 TATTCGATTCGACCTTGTGGTGACCAGATCTGGGGTATGATCAACATTATTATGGTTCAGACTCT
*
1284861 ACTAACCAATAA-TTTTT-TTTA-TTATTTTATTTTA-TTAATCTT-TTTGAAT
66 GCTAACCAATAATTTTTTATTTATTTATTTTATTTTATTTAAT-TTGTTTGAAT
* * *
1284910 TATTCGATTCGACCTTGTGGTGACCATATCTGGAGTATGATCTACATTATTATGGTTCAGACTCT
1 TATTCGATTCGACCTTGTGGTGACCAGATCTGGGGTATGATCAACATTATTATGGTTCAGACTCT
*
1284975 GCTAACCACTAACGTTTTTTTATTTATTTTATTTTATTTTATTTTGTTAATTTGTTTGAAT
66 GCTAACCAATAA---TTTTTTATTTA-TTTATTTTATTTTA---T-TTAATTTGTTTGAAT
* *
1285036 TATTCGATTCGACCTTATGGTGACCAGATCTGGGGTATGATCAACATTATTATGGTTCGGACTCT
1 TATTCGATTCGACCTTGTGGTGACCAGATCTGGGGTATGATCAACATTATTATGGTTCAGACTCT
1285101 GCTAACC
66 GCTAACC
1285108 GTTAACTTTC
Statistics
Matches: 170, Mismatches: 15, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
114 67 0.39
118 5 0.03
119 4 0.02
121 13 0.08
125 2 0.01
126 79 0.46
ACGTcount: A:0.25, C:0.16, G:0.16, T:0.44
Consensus pattern (118 bp):
TATTCGATTCGACCTTGTGGTGACCAGATCTGGGGTATGATCAACATTATTATGGTTCAGACTCT
GCTAACCAATAATTTTTTATTTATTTATTTTATTTTATTTAATTTGTTTGAAT
Found at i:1289370 original size:21 final size:21
Alignment explanation
Indices: 1289329--1289370 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
1289319 TATTTTTTTA
*
1289329 TTGAAAATTTGTTTTCACCCT
1 TTGAAAATTTGTTCTCACCCT
*
1289350 TTGAAATTTTAGTTCTC-CCCT
1 TTGAAAATTT-GTTCTCACCCT
1289371 AAGTTTAAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.21, C:0.21, G:0.10, T:0.48
Consensus pattern (21 bp):
TTGAAAATTTGTTCTCACCCT
Found at i:1300525 original size:18 final size:18
Alignment explanation
Indices: 1300504--1300559 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
1300494 TCAAATAATA
1300504 AAATAAATAAATACAATT
1 AAATAAATAAATACAATT
*
1300522 AAATAAATAAA-AGAATT
1 AAATAAATAAATACAATT
* *
1300539 AAA-AAGTAAATTCATATT
1 AAATAAATAAATACA-ATT
1300557 AAA
1 AAA
1300560 AAGGGTTAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
16 6 0.19
17 9 0.28
18 17 0.53
ACGTcount: A:0.66, C:0.04, G:0.04, T:0.27
Consensus pattern (18 bp):
AAATAAATAAATACAATT
Found at i:1301649 original size:21 final size:21
Alignment explanation
Indices: 1301625--1301688 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
1301615 TTAGGCATGT
* * *
1301625 TAAAAATGAAATTAAATATAA
1 TAAAAATAAAAATAAAAATAA
1301646 TAAAAATAAAAATAAAAAT-A
1 TAAAAATAAAAATAAAAATAA
* *
1301666 -AATAATATATAATAAAAATAA
1 TAAAAATA-AAAATAAAAATAA
1301687 TA
1 TA
1301689 TATTTTCAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
19 6 0.17
20 11 0.31
21 17 0.49
22 1 0.03
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.27
Consensus pattern (21 bp):
TAAAAATAAAAATAAAAATAA
Found at i:1301655 original size:6 final size:6
Alignment explanation
Indices: 1301644--1301686 Score: 59
Period size: 6 Copynumber: 6.8 Consensus size: 6
1301634 AATTAAATAT
*
1301644 AATAAA AATAAA AATAAA AATAAA TAATATAT AATAAA AATAA
1 AATAAA AATAAA AATAAA AATAAA -AATA-AA AATAAA AATAA
1301687 TATATTTTCA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
6 24 0.73
7 8 0.24
8 1 0.03
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (6 bp):
AATAAA
Found at i:1301679 original size:32 final size:33
Alignment explanation
Indices: 1301625--1301686 Score: 101
Period size: 32 Copynumber: 1.9 Consensus size: 33
1301615 TTAGGCATGT
1301625 TAAAAATGAAATTAAATATAATAAAAATAAAAA
1 TAAAAATGAAATTAAATATAATAAAAATAAAAA
1301658 TAAAAAT-AAA-TAATATATAATAAAAATAA
1 TAAAAATGAAATTAA-ATATAATAAAAATAA
1301687 TATATTTTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
31 3 0.11
32 18 0.64
33 7 0.25
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.26
Consensus pattern (33 bp):
TAAAAATGAAATTAAATATAATAAAAATAAAAA
Found at i:1301699 original size:16 final size:16
Alignment explanation
Indices: 1301640--1301691 Score: 70
Period size: 16 Copynumber: 3.2 Consensus size: 16
1301630 ATGAAATTAA
1301640 ATATAATAAAAATAA-
1 ATATAATAAAAATAAT
* *
1301655 AAATAAAAATAAATAAT
1 ATATAATAA-AAATAAT
1301672 ATATAATAAAAATAAT
1 ATATAATAAAAATAAT
1301688 ATAT
1 ATAT
1301692 TTTCAAAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
15 7 0.23
16 17 0.55
17 7 0.23
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
ATATAATAAAAATAAT
Found at i:1301768 original size:13 final size:13
Alignment explanation
Indices: 1301750--1301776 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1301740 AAAAGTATAT
1301750 ATATGTTTTCAAA
1 ATATGTTTTCAAA
1301763 ATATGTTTTCAAA
1 ATATGTTTTCAAA
1301776 A
1 A
1301777 GTATATTATA
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:0.41, C:0.07, G:0.07, T:0.44
Consensus pattern (13 bp):
ATATGTTTTCAAA
Found at i:1301871 original size:37 final size:37
Alignment explanation
Indices: 1301747--1301876 Score: 133
Period size: 37 Copynumber: 3.5 Consensus size: 37
1301737 TGAAAAAGTA
* * *
1301747 TATATATGTTTTC-AAAATATGTTTTCAAAAGTATAT
1 TATATATTTTTTCAAAAATGTGTTTTCAAAACTATAT
* *
1301783 TATATACGTTTTT-AAAAATCGT-TTTTTAAAACTATA-
1 TATATA-TTTTTTCAAAAAT-GTGTTTTCAAAACTATAT
*
1301819 TATATCCTTCGTTTTCAAAAATGTGTTTTCAAAACTATAT
1 TATAT-ATT--TTTTCAAAAATGTGTTTTCAAAACTATAT
1301859 TATATATTTTTTCAAAAA
1 TATATATTTTTTCAAAAA
1301877 ATTTTAAAAA
Statistics
Matches: 76, Mismatches: 9, Indels: 17
0.75 0.09 0.17
Matches are distributed among these distances:
36 12 0.16
37 31 0.41
38 7 0.09
39 21 0.28
40 5 0.07
ACGTcount: A:0.38, C:0.09, G:0.06, T:0.47
Consensus pattern (37 bp):
TATATATTTTTTCAAAAATGTGTTTTCAAAACTATAT
Found at i:1301928 original size:35 final size:36
Alignment explanation
Indices: 1301745--1302022 Score: 149
Period size: 35 Copynumber: 7.6 Consensus size: 36
1301735 TTTGAAAAAG
* * *
1301745 TATA-TATATGTTTTCAAAATATGTTTT-CAAAAGTA
1 TATATTATATGTTTTCAAAA-CTGTTTTAAAAAACTA
* * * **
1301780 TAT-TATATACGTTTTTAAAAATCGTTTTTTAAAACTA
1 TATAT-TATATGTTTTCAAAACT-GTTTTAAAAAACTA
* * **
1301817 TATA-TATCCTTCGTTTTCAAAAATGTGTTTTCAAAACTA
1 TATATTAT--AT-GTTTTCAAAACTGT-TTTAAAAAACTA
* ** *
1301856 TAT-TATATATTTTTTCAAAA-AATTTTAAAAAATTA
1 TATAT-TATATGTTTTCAAAACTGTTTTAAAAAACTA
* *
1301891 TATACTATATGTTTTCAAAACTGTTTT-AAATACTA
1 TATATTATATGTTTTCAAAACTGTTTTAAAAAACTA
* *
1301926 TATATTATACGCTTTT-AAAACTATTTTAAAAAACTA
1 TATATTATATG-TTTTCAAAACTGTTTTAAAAAACTA
* * **
1301962 TATATTATATGTTTTTTAAAAATATAAGTTTCCAAAAACTA
1 TATATTATATG--TTTTCAAAA-CT--GTTTTAAAAAACTA
*
1302003 TATATTATATATTTTCAAAA
1 TATATTATATGTTTTCAAAA
1302023 ACCATATTTG
Statistics
Matches: 190, Mismatches: 33, Indels: 36
0.73 0.13 0.14
Matches are distributed among these distances:
35 56 0.29
36 47 0.25
37 22 0.12
38 7 0.04
39 34 0.18
40 3 0.02
41 21 0.11
ACGTcount: A:0.41, C:0.09, G:0.05, T:0.46
Consensus pattern (36 bp):
TATATTATATGTTTTCAAAACTGTTTTAAAAAACTA
Found at i:1312721 original size:23 final size:23
Alignment explanation
Indices: 1312685--1312771 Score: 120
Period size: 23 Copynumber: 3.8 Consensus size: 23
1312675 GTCGAGGGTT
* *
1312685 CTATGTGGTACTTCGGGACAAAC
1 CTATGTAGTCCTTCGGGACAAAC
1312708 CTATGTAGTCCTTCGGGACAAAC
1 CTATGTAGTCCTTCGGGACAAAC
* *
1312731 CTATGTAGTCCTTCAGGACAAAT
1 CTATGTAGTCCTTCGGGACAAAC
* *
1312754 CTATGTGGTCATTCGGGA
1 CTATGTAGTCCTTCGGGA
1312772 AAAATATGTG
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 57 1.00
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.29
Consensus pattern (23 bp):
CTATGTAGTCCTTCGGGACAAAC
Found at i:1323445 original size:16 final size:16
Alignment explanation
Indices: 1323424--1323455 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
1323414 ATTTTAAGGA
1323424 ATTTTGAGACACTCAC
1 ATTTTGAGACACTCAC
1323440 ATTTTGAGACACTCAC
1 ATTTTGAGACACTCAC
1323456 TAAGCTTGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.31
Consensus pattern (16 bp):
ATTTTGAGACACTCAC
Found at i:1330621 original size:18 final size:17
Alignment explanation
Indices: 1330590--1330623 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
1330580 TGGATGAAAA
1330590 AAATAAAAGAAAACAAC
1 AAATAAAAGAAAACAAC
*
1330607 AAATGAAAAGGAAACAA
1 AAAT-AAAAGAAAACAA
1330624 GTTAGTAAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.74, C:0.09, G:0.12, T:0.06
Consensus pattern (17 bp):
AAATAAAAGAAAACAAC
Found at i:1330641 original size:3 final size:3
Alignment explanation
Indices: 1330633--1330661 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
1330623 AGTTAGTAAG
1330633 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1330662 GAAAATAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Done.