Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold160
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: 5021213
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 92036 characters in sequence are not A, C, G, or T
File 16 of 30
Found at i:2485035 original size:120 final size:119
Alignment explanation
Indices: 2484895--2485203 Score: 286
Period size: 120 Copynumber: 2.6 Consensus size: 119
2484885 TTTTGTCCCA
* * *
2484895 GTCAACTTTTCTCACTTGTTAAATTGTCAGTTTTCTCCCGATTAACTTTTTTCATTCATTATCTT
1 GTCAACTTTTTTCATTTGTTAAATTGTCAGTTTTCTCTCGATTAACTTTTTTCATTCATTA-CTT
** * * ** * * *
2484960 GTTTGTTTTATCCTGATCAACTTTTCTTGTTTGTTGACTTGTCGGTTTCATC-CTG
65 GTCAGTTTCATCCTGATCAACCTTTCTCATATGTTGACCTATCGGTTTCATCAC-G
* * *
2485015 GTCAACTTTTTTCATTTGTT-AATT-TACAGGTTTTATCTCGGTTAACCTTTTTCATTCATTGAC
1 GTCAACTTTTTTCATTTGTTAAATTGT-CA-GTTTTCTCTCGATTAACTTTTTTCATTCATT-AC
* * *
2485078 TTGTCAGTTTCGTCTTTATCAACCTTTCTCATATGTTGACCTATCGGTTTCATCACG
63 TTGTCAGTTTCATCCTGATCAACCTTTCTCATATGTTGACCTATCGGTTTCATCACG
** * * * * *
2485135 GTCAA-TTCTTTTCATTCATTAACTTGT-AGATTTCATCTCGATCAACTTTTCTCATTCGTTAAC
1 GTCAACTT-TTTTCATTTGTTAAATTGTCAGTTTTC-TCTCGATTAACTTTTTTCATTCATT-AC
2485198 TTGTCA
63 TTGTCA
2485204 ATTTTGTTTC
Statistics
Matches: 152, Mismatches: 29, Indels: 16
0.77 0.15 0.08
Matches are distributed among these distances:
118 1 0.01
119 12 0.08
120 133 0.88
121 5 0.03
122 1 0.01
ACGTcount: A:0.19, C:0.21, G:0.12, T:0.49
Consensus pattern (119 bp):
GTCAACTTTTTTCATTTGTTAAATTGTCAGTTTTCTCTCGATTAACTTTTTTCATTCATTACTTG
TCAGTTTCATCCTGATCAACCTTTCTCATATGTTGACCTATCGGTTTCATCACG
Found at i:2485230 original size:40 final size:40
Alignment explanation
Indices: 2485125--2485239 Score: 117
Period size: 40 Copynumber: 2.9 Consensus size: 40
2485115 GACCTATCGG
* *
2485125 TTTCATCACGGTC-AATTCTTTTCATTCATTAACTTGTAGA
1 TTTCATCTCGGTCAAATT-TTTTCATTCGTTAACTTGTAGA
* * *
2485165 TTTCATCTCGATCAACTTTTCTCATTCGTTAACTTGTCA-A
1 TTTCATCTCGGTCAAATTTTTTCATTCGTTAACTTGT-AGA
** * *
2485205 TTTTGTTTCGGTCAAATTTTTTCATTCGTTGACTT
1 TTTCATCTCGGTCAAATTTTTTCATTCGTTAACTT
2485240 ATTGATTTGG
Statistics
Matches: 61, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
40 57 0.93
41 4 0.07
ACGTcount: A:0.21, C:0.20, G:0.10, T:0.49
Consensus pattern (40 bp):
TTTCATCTCGGTCAAATTTTTTCATTCGTTAACTTGTAGA
Found at i:2486107 original size:19 final size:19
Alignment explanation
Indices: 2486083--2486137 Score: 83
Period size: 19 Copynumber: 2.9 Consensus size: 19
2486073 CTGCCAATTT
2486083 TATGCATCGATACAATGAG
1 TATGCATCGATACAATGAG
*
2486102 TATGCATCGATAAAATGAG
1 TATGCATCGATACAATGAG
* *
2486121 CATGTATCGATACAATG
1 TATGCATCGATACAATG
2486138 TATCTATACA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.27
Consensus pattern (19 bp):
TATGCATCGATACAATGAG
Found at i:2493773 original size:33 final size:33
Alignment explanation
Indices: 2493731--2493793 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
2493721 TTGGGCATAA
* **
2493731 TGTATCGATACAATTCTTCATGTATCGATAGAT
1 TGTATCGATACAATGCACCATGTATCGATAGAT
2493764 TGTATCGATACAATGCACCATGTATCGATA
1 TGTATCGATACAATGCACCATGTATCGATA
2493794 CAAACAGTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.35
Consensus pattern (33 bp):
TGTATCGATACAATGCACCATGTATCGATAGAT
Found at i:2493849 original size:20 final size:20
Alignment explanation
Indices: 2493824--2493878 Score: 85
Period size: 19 Copynumber: 2.8 Consensus size: 20
2493814 ACTGCTAGTT
2493824 TATGTATCGATACAATTGAG
1 TATGTATCGATACAATTGAG
*
2493844 TATGTATCGATAC-ACTGAG
1 TATGTATCGATACAATTGAG
*
2493863 CATGTATCGATACAAT
1 TATGTATCGATACAAT
2493879 GTATCGATAC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.33
Consensus pattern (20 bp):
TATGTATCGATACAATTGAG
Found at i:2493882 original size:13 final size:13
Alignment explanation
Indices: 2493864--2493890 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2493854 TACACTGAGC
2493864 ATGTATCGATACA
1 ATGTATCGATACA
2493877 ATGTATCGATACA
1 ATGTATCGATACA
2493890 A
1 A
2493891 AGCATAATTT
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:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2497162 original size:52 final size:51
Alignment explanation
Indices: 2497077--2497200 Score: 205
Period size: 52 Copynumber: 2.4 Consensus size: 51
2497067 ATATGAAAAG
* *
2497077 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAA
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
2497128 TTTGCCTGCATGTATCGATACATTTTAA-AATGTATCGATACATCTGGGCAAA
1 -TTGCCTGCATGTATCGATACA-TTTAATAATGTATCGATACATCTGGGCAAA
2497180 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
2497201 AAGATCAGTG
Statistics
Matches: 69, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
51 21 0.30
52 43 0.62
53 5 0.07
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.35
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
Found at i:2497213 original size:51 final size:50
Alignment explanation
Indices: 2497077--2497220 Score: 177
Period size: 52 Copynumber: 2.8 Consensus size: 50
2497067 ATATGAAAAG
* *
2497077 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA--AAATAGTGTATCGATACATCTGGGCAAAT
2497129 TTGCCTGCATGTATCGATACATTTTAAA-A-TGTATCGATACATCTGGGCAAA-
1 TTGCCTGCATGTATCGATACA----AAATAGTGTATCGATACATCTGGGCAAAT
2497180 TTGCCTGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACAAA-AT-AGTGTATCGATACA
2497221 ATGTATCGAT
Statistics
Matches: 84, Mismatches: 2, Indels: 13
0.85 0.02 0.13
Matches are distributed among these distances:
47 2 0.02
48 1 0.01
50 1 0.01
51 33 0.39
52 42 0.50
53 1 0.01
54 4 0.05
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (50 bp):
TTGCCTGCATGTATCGATACAAAATAGTGTATCGATACATCTGGGCAAAT
Found at i:2497227 original size:13 final size:13
Alignment explanation
Indices: 2497209--2497233 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2497199 CAAAGATCAG
2497209 TGTATCGATACAA
1 TGTATCGATACAA
2497222 TGTATCGATACA
1 TGTATCGATACA
2497234 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2497311 original size:33 final size:33
Alignment explanation
Indices: 2497274--2497340 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
2497264 AGTAGCTTAA
2497274 ATTGTATCGATACAACAAAATATGTATCGATAC
1 ATTGTATCGATACAACAAAATATGTATCGATAC
***
2497307 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAACAAAATATGTATCGATAC
2497340 A
1 A
2497341 AATCGTTGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAACAAAATATGTATCGATAC
Found at i:2497314 original size:13 final size:13
Alignment explanation
Indices: 2497296--2497320 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2497286 CAACAAAATA
2497296 TGTATCGATACAT
1 TGTATCGATACAT
2497309 TGTATCGATACA
1 TGTATCGATACA
2497321 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2497662 original size:22 final size:22
Alignment explanation
Indices: 2497637--2497691 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
2497627 GATTATTTTT
2497637 ACTTGAAAACATTCGATTTAAG
1 ACTTGAAAACATTCGATTTAAG
2497659 ACTTGAAAACATTCGATTTAAG
1 ACTTGAAAACATTCGATTTAAG
2497681 ACTTGAAAACA
1 ACTTGAAAACA
2497692 CTTATACGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.29
Consensus pattern (22 bp):
ACTTGAAAACATTCGATTTAAG
Found at i:2505110 original size:18 final size:18
Alignment explanation
Indices: 2505087--2505193 Score: 56
Period size: 21 Copynumber: 5.3 Consensus size: 18
2505077 ATCTTCTTCT
2505087 CTCCTCCTCCTATCATCC
1 CTCCTCCTCCTATCATCC
*
2505105 CTCCT-CTCTCTATTATCTCTC
1 CTCCTCCTC-CTATCA--TC-C
2505126 CTGTCTCTCCTCCTATCATCC
1 C--TC-CTCCTCCTATCATCC
*
2505147 CTCCTATCTCTACTATC-TCTC
1 CTCC--TC-CTCCTATCATC-C
2505168 CTGTCTCTCCTCCTATCATCC
1 C--TC-CTCCTCCTATCATCC
2505189 CTCCT
1 CTCCT
2505194 ATCTCTTCTT
Statistics
Matches: 69, Mismatches: 4, Indels: 32
0.66 0.04 0.30
Matches are distributed among these distances:
17 3 0.04
18 13 0.19
19 4 0.06
20 6 0.09
21 22 0.32
22 6 0.09
23 4 0.06
24 8 0.12
25 3 0.04
ACGTcount: A:0.10, C:0.48, G:0.02, T:0.40
Consensus pattern (18 bp):
CTCCTCCTCCTATCATCC
Found at i:2505142 original size:42 final size:42
Alignment explanation
Indices: 2505090--2505208 Score: 202
Period size: 42 Copynumber: 2.8 Consensus size: 42
2505080 TTCTTCTCTC
* *
2505090 CTCCTCCTATCATCCCTCCTCTCTCTATTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTGTCT
2505132 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTGTCT
* *
2505174 CTCCTCCTATCATCCCTCCTATCTCTTCTTTCTCT
1 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCT
2505209 TTGAGGGCTA
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 73 1.00
ACGTcount: A:0.10, C:0.45, G:0.02, T:0.43
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTGTCT
Found at i:2505149 original size:12 final size:11
Alignment explanation
Indices: 2505123--2505198 Score: 61
Period size: 12 Copynumber: 6.9 Consensus size: 11
2505113 TCTATTATCT
*
2505123 CTCCTGTCTCTC
1 CTCCTATCTC-C
2505135 CTCCTATCATCC
1 CTCCTATC-TCC
2505147 CTCCTATCT--
1 CTCCTATCTCC
*
2505156 CTACTATCT--
1 CTCCTATCTCC
*
2505165 CTCCTGTCTCTC
1 CTCCTATCTC-C
2505177 CTCCTATCATCC
1 CTCCTATC-TCC
2505189 CTCCTATCTC
1 CTCCTATCTC
2505199 TTCTTTCTCT
Statistics
Matches: 54, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
9 15 0.28
11 3 0.06
12 32 0.59
13 4 0.07
ACGTcount: A:0.11, C:0.47, G:0.03, T:0.39
Consensus pattern (11 bp):
CTCCTATCTCC
Found at i:2511955 original size:28 final size:28
Alignment explanation
Indices: 2511923--2511992 Score: 72
Period size: 28 Copynumber: 2.5 Consensus size: 28
2511913 TTTAAATAAC
2511923 ATTAATTAATTAATTT-AAA-TAATAATAT
1 ATTAATTAATTAATTTGAAAGT--TAATAT
* * *
2511951 TTTAATTATTTTATTTGAAAGTTAATAT
1 ATTAATTAATTAATTTGAAAGTTAATAT
2511979 ATTAATTGAATTAA
1 ATTAATT-AATTAA
2511993 ATATAAGTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
28 25 0.76
29 7 0.21
30 1 0.03
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (28 bp):
ATTAATTAATTAATTTGAAAGTTAATAT
Found at i:2524055 original size:79 final size:79
Alignment explanation
Indices: 2523898--2524120 Score: 209
Period size: 79 Copynumber: 2.8 Consensus size: 79
2523888 TGAGAAATTT
* * * * * **
2523898 AATATTTTGGAGATAATAA-CAGGGTTGGAGTATTCCCTTGAAAATAACGGGGTTGGAGTATTTC
1 AATATTTAGGAAATAA-AACCAGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCC
** *
2523962 CGGTTGCGAAAAATC
65 CAATTACGAAAAATC
* *
2523977 GATGA-TTAGGAAATAAAATC-GGGATTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCC
1 AAT-ATTTAGGAAATAAAACCAGGG-TTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCC
* *
2524040 CCAATTATGAGAAATC
64 CCAATTACGAAAAATC
* * *** * *
2524056 AATATTTTGGAAATAAAGCCAGGGTTGGAGTATCCCCTCGGAGGCAATGGGGTTAGAGTATCCCC
1 AATATTTAGGAAATAAAACCAGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCC
2524121 GATGAAATAA
Statistics
Matches: 117, Mismatches: 22, Indels: 10
0.79 0.15 0.07
Matches are distributed among these distances:
78 6 0.05
79 107 0.91
80 4 0.03
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.26
Consensus pattern (79 bp):
AATATTTAGGAAATAAAACCAGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCC
AATTACGAAAAATC
Found at i:2526605 original size:13 final size:13
Alignment explanation
Indices: 2526587--2526612 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2526577 ACAAAGATCG
2526587 ATGTATCGATACA
1 ATGTATCGATACA
2526600 ATGTATCGATACA
1 ATGTATCGATACA
2526613 TTTTCTTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2528255 original size:14 final size:14
Alignment explanation
Indices: 2528223--2528266 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
2528213 TTATTTATGG
*
2528223 ATTAATTATTTTTA
1 ATTAATTATTTTAA
*
2528237 TTTAATTATTTTAA
1 ATTAATTATTTTAA
2528251 ATTAAAATTATTTTAA
1 ATT--AATTATTTTAA
2528267 TATTTTTAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 14 0.56
16 11 0.44
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
ATTAATTATTTTAA
Found at i:2532817 original size:1 final size:1
Alignment explanation
Indices: 2532811--2532890 Score: 160
Period size: 1 Copynumber: 80.0 Consensus size: 1
2532801 TTAAGCTAGT
2532811 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
2532876 GGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGG
2532891 AGAGAGAGAG
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 79 1.00
ACGTcount: A:0.00, C:0.00, G:1.00, T:0.00
Consensus pattern (1 bp):
G
Found at i:2534806 original size:17 final size:16
Alignment explanation
Indices: 2534784--2534838 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 16
2534774 TATTTAAAGT
2534784 ATTTTATATTTATATAA
1 ATTTTATA-TTATATAA
2534801 ATTTTAATAAATTA-AT-A
1 ATTTT-AT--ATTATATAA
2534818 A-TTTATATTATATAA
1 ATTTTATATTATATAA
2534833 ATTTTA
1 ATTTTA
2534839 AAATATTTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 13
0.71 0.00 0.29
Matches are distributed among these distances:
13 4 0.12
14 2 0.06
15 4 0.12
16 7 0.22
17 7 0.22
18 4 0.12
19 3 0.09
20 1 0.03
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
ATTTTATATTATATAA
Found at i:2534851 original size:27 final size:27
Alignment explanation
Indices: 2534776--2534852 Score: 68
Period size: 32 Copynumber: 2.7 Consensus size: 27
2534766 TGCAATCATA
*
2534776 TTTAAAGTATTT-TATATTTATATAAAT
1 TTTAAAATATTTATATA-TTATATAAAT
2534803 TTTAATAA-ATTAATAATTTATATTATATAAAT
1 TTTAA-AATATT--T-A--TATATTATATAAAT
2534835 TTTAAAATATTTATATAT
1 TTTAAAATATTTATATAT
2534853 CTAATTCAGG
Statistics
Matches: 41, Mismatches: 1, Indels: 16
0.71 0.02 0.28
Matches are distributed among these distances:
27 13 0.32
28 1 0.02
29 2 0.05
30 1 0.02
31 2 0.05
32 18 0.44
33 4 0.10
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.53
Consensus pattern (27 bp):
TTTAAAATATTTATATATTATATAAAT
Found at i:2535223 original size:2 final size:2
Alignment explanation
Indices: 2535216--2535266 Score: 95
Period size: 2 Copynumber: 26.0 Consensus size: 2
2535206 GGAATACAAC
2535216 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
2535258 AT AT -T AT AT
1 AT AT AT AT AT
2535267 GGGTTTAATT
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 47 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:2535451 original size:7 final size:7
Alignment explanation
Indices: 2535439--2535562 Score: 51
Period size: 7 Copynumber: 17.7 Consensus size: 7
2535429 AATGTTAAGT
2535439 TTAAATC
1 TTAAATC
2535446 TTAAATC
1 TTAAATC
*
2535453 CTAAATC
1 TTAAATC
* *
2535460 TAAAACC
1 TTAAATC
2535467 TTAAATAAC
1 TTAAAT--C
*
2535476 TATAAATA
1 T-TAAATC
*
2535484 TTGAATC
1 TTAAATC
*
2535491 TTAAATT
1 TTAAATC
2535498 TTAAA-C
1 TTAAATC
2535504 TTTAAA--
1 -TTAAATC
* *
2535510 ATAAATA
1 TTAAATC
* *
2535517 TTGAACC
1 TTAAATC
*
2535524 TTAAATT
1 TTAAATC
2535531 TTAAA-C
1 TTAAATC
*
2535537 TTTAAATG
1 -TTAAATC
*
2535545 ATAAATC
1 TTAAATC
2535552 TTAAA-C
1 TTAAATC
2535558 TTAAA
1 TTAAA
2535563 CCCTAAATGA
Statistics
Matches: 84, Mismatches: 25, Indels: 17
0.67 0.20 0.13
Matches are distributed among these distances:
5 4 0.05
6 6 0.07
7 66 0.79
8 1 0.01
9 2 0.02
10 5 0.06
ACGTcount: A:0.48, C:0.11, G:0.02, T:0.38
Consensus pattern (7 bp):
TTAAATC
Found at i:2535519 original size:33 final size:33
Alignment explanation
Indices: 2535477--2535542 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
2535467 TTAAATAACT
*
2535477 ATAAATATTGAATCTTAAATTTTAAACTTTAAA
1 ATAAATATTGAACCTTAAATTTTAAACTTTAAA
2535510 ATAAATATTGAACCTTAAATTTTAAACTTTAAA
1 ATAAATATTGAACCTTAAATTTTAAACTTTAAA
2535543 TGATAAATCT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.48, C:0.08, G:0.03, T:0.41
Consensus pattern (33 bp):
ATAAATATTGAACCTTAAATTTTAAACTTTAAA
Found at i:2535569 original size:27 final size:27
Alignment explanation
Indices: 2535539--2535596 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 27
2535529 TTTTAAACTT
*
2535539 TAAATGATAAA-TCTTAAACTTAAACCC
1 TAAATGATAAACTC-CAAACTTAAACCC
*
2535566 TAAATGATAAACTCCAATCTTAAACCC
1 TAAATGATAAACTCCAAACTTAAACCC
2535593 TAAA
1 TAAA
2535597 CACTAAGTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 26 0.93
28 2 0.07
ACGTcount: A:0.48, C:0.21, G:0.03, T:0.28
Consensus pattern (27 bp):
TAAATGATAAACTCCAAACTTAAACCC
Found at i:2535878 original size:2 final size:2
Alignment explanation
Indices: 2535856--2535899 Score: 63
Period size: 2 Copynumber: 22.5 Consensus size: 2
2535846 ATTTAAACTC
* *
2535856 AT AT A- AT AC AT AT AT AA 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
2535897 AT A
1 AT A
2535900 AAAGAAACAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:2536388 original size:32 final size:32
Alignment explanation
Indices: 2536347--2536407 Score: 122
Period size: 32 Copynumber: 1.9 Consensus size: 32
2536337 TTTATCTATC
2536347 TTTATCTATCTAAGCTTAATTAAAAAAAACAA
1 TTTATCTATCTAAGCTTAATTAAAAAAAACAA
2536379 TTTATCTATCTAAGCTTAATTAAAAAAAA
1 TTTATCTATCTAAGCTTAATTAAAAAAAA
2536408 ATGATAAGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.49, C:0.11, G:0.03, T:0.36
Consensus pattern (32 bp):
TTTATCTATCTAAGCTTAATTAAAAAAAACAA
Found at i:2537038 original size:40 final size:39
Alignment explanation
Indices: 2536994--2537075 Score: 155
Period size: 40 Copynumber: 2.1 Consensus size: 39
2536984 ATATATATAT
2536994 ATATATGCATATGAGTTTGATTATTAATTTTTTTTTTTGA
1 ATATATGCATATGAGTTTGATTATTAA-TTTTTTTTTTGA
2537034 ATATATGCATATGAGTTTGATTATTAATTTTTTTTTTGA
1 ATATATGCATATGAGTTTGATTATTAATTTTTTTTTTGA
2537073 ATA
1 ATA
2537076 GTTGCAATCA
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
39 15 0.36
40 27 0.64
ACGTcount: A:0.29, C:0.02, G:0.12, T:0.56
Consensus pattern (39 bp):
ATATATGCATATGAGTTTGATTATTAATTTTTTTTTTGA
Found at i:2537095 original size:39 final size:38
Alignment explanation
Indices: 2536994--2537100 Score: 103
Period size: 40 Copynumber: 2.7 Consensus size: 38
2536984 ATATATATAT
**
2536994 ATATATGCATATGAGTTTGATTATTAATTTTTTTTTTTGA
1 ATATATGCATATGAG-AAGATTATTAA-TTTTTTTTTTGA
**
2537034 ATATATGCATATGAGTTTGATTATTAATTTTTTTTTTGA
1 ATATATGCATATGAG-AAGATTATTAATTTTTTTTTTGA
2537073 ATAGT-TGCAATCATGA-AAGATTA-TAATT
1 ATA-TATGC-AT-ATGAGAAGATTATTAATT
2537101 AATCTTTATA
Statistics
Matches: 62, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
38 5 0.08
39 23 0.37
40 30 0.48
41 4 0.06
ACGTcount: A:0.32, C:0.04, G:0.13, T:0.51
Consensus pattern (38 bp):
ATATATGCATATGAGAAGATTATTAATTTTTTTTTTGA
Found at i:2539720 original size:13 final size:13
Alignment explanation
Indices: 2539702--2539726 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2539692 ATATTGCACA
2539702 GTATCGATACATT
1 GTATCGATACATT
2539715 GTATCGATACAT
1 GTATCGATACAT
2539727 GACCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:2539833 original size:20 final size:20
Alignment explanation
Indices: 2539808--2539860 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
2539798 CTTAACTGTT
2539808 TGTATCGATACATCCCAAAA
1 TGTATCGATACATCCCAAAA
2539828 TGTATCGATACATCCCAAAA
1 TGTATCGATACATCCCAAAA
*
2539848 TGTATAGATACAT
1 TGTATCGATACAT
2539861 TGGCTTGTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.40, C:0.21, G:0.11, T:0.28
Consensus pattern (20 bp):
TGTATCGATACATCCCAAAA
Found at i:2541313 original size:13 final size:13
Alignment explanation
Indices: 2541295--2541319 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2541285 ATATTGCACA
2541295 GTATCGATACATT
1 GTATCGATACATT
2541308 GTATCGATACAT
1 GTATCGATACAT
2541320 GACCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:2541437 original size:13 final size:13
Alignment explanation
Indices: 2541419--2541444 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2541409 TACACACAAG
2541419 ATGTATCGATACA
1 ATGTATCGATACA
2541432 ATGTATCGATACA
1 ATGTATCGATACA
2541445 TCCCAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2541461 original size:33 final size:32
Alignment explanation
Indices: 2541401--2541464 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
2541391 CTTAACTATT
*
2541401 TGTATCGATACACACAAGATGTATCGATACAA
1 TGTATCGATACACACAAAATGTATCGATACAA
*
2541433 TGTATCGATACATCCCAAAATGTATCGATACA
1 TGTATCGATACA-CACAAAATGTATCGATACA
2541465 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (32 bp):
TGTATCGATACACACAAAATGTATCGATACAA
Found at i:2543571 original size:20 final size:20
Alignment explanation
Indices: 2543518--2543571 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 20
2543508 TTTAACAATT
2543518 TGTATCGATACAATAAGGTAA
1 TGTATCGATAC-ATAAGGTAA
*
2543539 TGTATTGATACATAA-GTGAA
1 TGTATCGATACATAAGGT-AA
*
2543559 TGTATCAATACAT
1 TGTATCGATACAT
2543572 GCTTGAAATG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 2 0.07
20 17 0.59
21 10 0.34
ACGTcount: A:0.41, C:0.09, G:0.17, T:0.33
Consensus pattern (20 bp):
TGTATCGATACATAAGGTAA
Found at i:2543704 original size:52 final size:50
Alignment explanation
Indices: 2543626--2543763 Score: 143
Period size: 52 Copynumber: 2.7 Consensus size: 50
2543616 TTCTAAAAAG
*
2543626 AAATGTATCGATATTTTTCATTGTATCGATACATTCTAAG-TTTTTGACTC
1 AAATGTATCGATATTTTTCATTGTATCGATACATT-TAAGATTTTTGACCC
* * **
2543676 AAATGTATCGATATATTTGTTATTGTATCGATATATTTTGGATTTTTGACCC
1 AAATGTATCGATAT-TTT-TCATTGTATCGATACATTTAAGATTTTTGACCC
* * * *
2543728 AAATATATCGATACATTCTTCAATGCATCGATACAT
1 AAATGTATCGAT--ATTTTTCATTGTATCGATACAT
2543764 GTAGTCAATT
Statistics
Matches: 72, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
50 14 0.19
51 5 0.07
52 49 0.68
53 2 0.03
54 2 0.03
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.43
Consensus pattern (50 bp):
AAATGTATCGATATTTTTCATTGTATCGATACATTTAAGATTTTTGACCC
Found at i:2547604 original size:19 final size:20
Alignment explanation
Indices: 2547580--2547626 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
2547570 ACAATGCATT
*
2547580 GATACATGCTC-TTTGTATC
1 GATACATGCTCAATTGTATC
*
2547599 GATACATACTCAATTGTATC
1 GATACATGCTCAATTGTATC
2547619 GATACATG
1 GATACATG
2547627 AAATTGGCAG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 10 0.42
20 14 0.58
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.36
Consensus pattern (20 bp):
GATACATGCTCAATTGTATC
Found at i:2552487 original size:9 final size:9
Alignment explanation
Indices: 2552473--2552575 Score: 68
Period size: 9 Copynumber: 11.1 Consensus size: 9
2552463 CTCTCTTTAT
2552473 TATCTCTCC
1 TATCTCTCC
2552482 TATCTCTTCTCC
1 TA--TC-TCTCC
2552494 TATCATCCCTCC
1 TATC-T--CTCC
* *
2552506 TCTCTCTAC
1 TATCTCTCC
2552515 TATCTCTCC
1 TATCTCTCC
2552524 TATCTCTCC
1 TATCTCTCC
* *
2552533 T-CCTAT-C
1 TATCTCTCC
*
2552540 -ATCCCTCC
1 TATCTCTCC
*
2552548 TATCTCTAC
1 TATCTCTCC
*
2552557 TATCTCTCT
1 TATCTCTCC
2552566 TATCTCTCC
1 TATCTCTCC
2552575 T
1 T
2552576 CCTATCATCC
Statistics
Matches: 71, Mismatches: 15, Indels: 16
0.70 0.15 0.16
Matches are distributed among these distances:
7 3 0.04
8 4 0.06
9 44 0.62
10 3 0.04
11 3 0.04
12 14 0.20
ACGTcount: A:0.13, C:0.44, G:0.00, T:0.44
Consensus pattern (9 bp):
TATCTCTCC
Found at i:2552494 original size:12 final size:11
Alignment explanation
Indices: 2552475--2552596 Score: 82
Period size: 12 Copynumber: 11.3 Consensus size: 11
2552465 CTCTTTATTA
2552475 TCTCTCCTATC
1 TCTCTCCTATC
2552486 TCTTCTCCTATC
1 TC-TCTCCTATC
*
2552498 ATCCCTCC--TC
1 -TCTCTCCTATC
*
2552508 TCTCTACTA--
1 TCTCTCCTATC
2552517 TCTCTCCTATC
1 TCTCTCCTATC
2552528 TCTCCTCCTATC
1 TCT-CTCCTATC
*
2552540 ATCCCTCCTA--
1 -TCTCTCCTATC
*
2552550 TCTCTACTATC
1 TCTCTCCTATC
2552561 TCTCT--TATC
1 TCTCTCCTATC
2552570 TCTCCTCCTATC
1 TCT-CTCCTATC
2552582 ATC-CATCCTATC
1 -TCTC-TCCTATC
2552594 TCT
1 TCT
2552597 TTTTTCTCTT
Statistics
Matches: 88, Mismatches: 7, Indels: 31
0.70 0.06 0.25
Matches are distributed among these distances:
9 27 0.31
10 4 0.05
11 13 0.15
12 38 0.43
13 6 0.07
ACGTcount: A:0.13, C:0.44, G:0.00, T:0.43
Consensus pattern (11 bp):
TCTCTCCTATC
Found at i:2552605 original size:42 final size:42
Alignment explanation
Indices: 2552473--2552596 Score: 212
Period size: 42 Copynumber: 3.0 Consensus size: 42
2552463 CTCTCTTTAT
* *
2552473 TATCTCTCCTATCTCTTCTCCTATCATCCCTCCTCTCTCTAC
1 TATCTCTCCTATCTCTCCTCCTATCATCCCTCCTATCTCTAC
2552515 TATCTCTCCTATCTCTCCTCCTATCATCCCTCCTATCTCTAC
1 TATCTCTCCTATCTCTCCTCCTATCATCCCTCCTATCTCTAC
* *
2552557 TATCTCTCTTATCTCTCCTCCTATCATCCATCCTATCTCT
1 TATCTCTCCTATCTCTCCTCCTATCATCCCTCCTATCTCT
2552597 TTTTTCTCTT
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 78 1.00
ACGTcount: A:0.14, C:0.44, G:0.00, T:0.43
Consensus pattern (42 bp):
TATCTCTCCTATCTCTCCTCCTATCATCCCTCCTATCTCTAC
Found at i:2558240 original size:21 final size:21
Alignment explanation
Indices: 2558211--2558255 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
2558201 AAGTTTTCAT
*
2558211 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
2558231 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
2558253 TTT
1 TTT
2558256 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:2560475 original size:20 final size:20
Alignment explanation
Indices: 2560450--2560501 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
2560440 TACAAGCCAA
** *
2560450 TGTATCGATACAATTTTTTG
1 TGTATCGATACAATACTTGG
2560470 TGTATCGATAC-ATACTTGG
1 TGTATCGATACAATACTTGG
2560489 TGTATCGATACAA
1 TGTATCGATACAA
2560502 GTTTGGCTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 16 0.57
20 12 0.43
ACGTcount: A:0.29, C:0.13, G:0.17, T:0.40
Consensus pattern (20 bp):
TGTATCGATACAATACTTGG
Found at i:2560507 original size:19 final size:18
Alignment explanation
Indices: 2560450--2560507 Score: 62
Period size: 19 Copynumber: 3.0 Consensus size: 18
2560440 TACAAGCCAA
*
2560450 TGTATCGATACAATTTTTTG
1 TGTATCGATACAA--TTTGG
*
2560470 TGTATCGATACATACTTGG
1 TGTATCGATACA-ATTTGG
2560489 TGTATCGATACAAGTTTGG
1 TGTATCGATACAA-TTTGG
2560508 CTACTGCCAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
18 1 0.03
19 19 0.58
20 12 0.36
21 1 0.03
ACGTcount: A:0.26, C:0.12, G:0.21, T:0.41
Consensus pattern (18 bp):
TGTATCGATACAATTTGG
Found at i:2568833 original size:27 final size:27
Alignment explanation
Indices: 2568776--2568834 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
2568766 ACAACTCCCT
*
2568776 ATATAGCTAAGTTATATGTGGAGTAAC
1 ATATAGCTAAGTTATATGTGGAATAAC
*
2568803 ATATAGCTAAGTTATATTTGGAAATAA-
1 ATATAGCTAAGTTATATGTGG-AATAAC
2568830 ATATA
1 ATATA
2568835 TTTTGATGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 25 0.86
28 4 0.14
ACGTcount: A:0.42, C:0.05, G:0.17, T:0.36
Consensus pattern (27 bp):
ATATAGCTAAGTTATATGTGGAATAAC
Found at i:2569810 original size:11 final size:11
Alignment explanation
Indices: 2569794--2569841 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
2569784 ATAAATGTGT
2569794 TAAAATTTATA
1 TAAAATTTATA
2569805 TAAAATTTAT-
1 TAAAATTTATA
* *
2569815 TATTAATGTATA
1 TA-AAATTTATA
2569827 -AAAATTTATA
1 TAAAATTTATA
2569837 TAAAA
1 TAAAA
2569842 ATATAATATC
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
10 9 0.30
11 21 0.70
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (11 bp):
TAAAATTTATA
Found at i:2574466 original size:23 final size:23
Alignment explanation
Indices: 2574424--2574468 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
2574414 TTTAACTAAC
**
2574424 GTATCGATACATCTGGGTAGAAT
1 GTATCGATACATCTAAGTAGAAT
2574447 GTATCGATACATCTAAGTAGAA
1 GTATCGATACATCTAAGTAGAA
2574469 AGACAGAATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.29
Consensus pattern (23 bp):
GTATCGATACATCTAAGTAGAAT
Found at i:2577733 original size:2 final size:2
Alignment explanation
Indices: 2577726--2577775 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
2577716 TTTATAACAA
2577726 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
2577768 AT AT AT AT
1 AT AT AT AT
2577776 GGAGGCATTG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2579470 original size:4 final size:4
Alignment explanation
Indices: 2579463--2579506 Score: 61
Period size: 4 Copynumber: 11.0 Consensus size: 4
2579453 TGTGTGTGTG
* * *
2579463 TATA TATA TATA TATA TATA TATG TATA TATG TATG TATA TATA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
2579507 CACACACACA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (4 bp):
TATA
Found at i:2579480 original size:12 final size:12
Alignment explanation
Indices: 2579461--2579506 Score: 74
Period size: 12 Copynumber: 3.8 Consensus size: 12
2579451 CGTGTGTGTG
2579461 TGTATATATATA
1 TGTATATATATA
*
2579473 TATATATATATA
1 TGTATATATATA
*
2579485 TGTATATATGTA
1 TGTATATATATA
2579497 TGTATATATA
1 TGTATATATA
2579507 CACACACACA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (12 bp):
TGTATATATATA
Found at i:2579693 original size:2 final size:2
Alignment explanation
Indices: 2579686--2579712 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2579676 TCGCTGGTTA
2579686 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
2579713 GCAGCTGTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2581614 original size:30 final size:31
Alignment explanation
Indices: 2581563--2581648 Score: 88
Period size: 30 Copynumber: 2.9 Consensus size: 31
2581553 TTACATCAAA
* * **
2581563 ATAAA-TTTAATTTGCAATTAAATAATTCT-
1 ATAAATTTTAATTTGTACTTAAATAAAACTC
*
2581592 TTAAATTTTAATTTGTACTTAAA-AAAACTC
1 ATAAATTTTAATTTGTACTTAAATAAAACTC
* *
2581622 ATAAATATTAATTTATACTTAAATAAA
1 ATAAATTTTAATTTGTACTTAAATAAA
2581649 CCTTAAATCA
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
29 8 0.17
30 35 0.76
31 3 0.07
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.43
Consensus pattern (31 bp):
ATAAATTTTAATTTGTACTTAAATAAAACTC
Found at i:2583923 original size:2 final size:2
Alignment explanation
Indices: 2583918--2583948 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2583908 AGAAAAAAAT
2583918 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2583949 TTCTTTGAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2584661 original size:15 final size:14
Alignment explanation
Indices: 2584633--2584682 Score: 64
Period size: 15 Copynumber: 3.4 Consensus size: 14
2584623 GAATTTTTCT
2584633 TTTTTTTTGATAAAGA
1 TTTTTTTTG-TAAA-A
2584649 TTTTTTTTGTAAAA
1 TTTTTTTTGTAAAA
*
2584663 TCTTTTTTTGTAAAC
1 T-TTTTTTTGTAAAA
2584678 TTTTT
1 TTTTT
2584683 ATGAGTTTGA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
14 6 0.19
15 17 0.53
16 9 0.28
ACGTcount: A:0.24, C:0.04, G:0.08, T:0.64
Consensus pattern (14 bp):
TTTTTTTTGTAAAA
Found at i:2595103 original size:20 final size:19
Alignment explanation
Indices: 2595057--2595113 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
2595047 TTGTATCGAT
*
2595057 ACATTGTATCAATACATGC
1 ACATTGTATCGATACATGC
* *
2595076 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGC
2595095 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
2595114 AGATTGGCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (19 bp):
ACATTGTATCGATACATGC
Found at i:2595188 original size:13 final size:13
Alignment explanation
Indices: 2595156--2595211 Score: 59
Period size: 13 Copynumber: 4.7 Consensus size: 13
2595146 ATCGATACAT
*
2595156 GATACAATGTATC
1 GATACATTGTATC
2595169 GATACATTGTATC
1 GATACATTGTATC
*
2595182 GATACA-TG-A-G
1 GATACATTGTATC
2595192 GA-A-ATTGTATC
1 GATACATTGTATC
2595203 GATACATTG
1 GATACATTG
2595212 CTTGTAACGG
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
8 1 0.03
9 3 0.09
10 3 0.09
11 3 0.09
12 3 0.09
13 22 0.63
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (13 bp):
GATACATTGTATC
Found at i:2595206 original size:34 final size:33
Alignment explanation
Indices: 2595145--2595211 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 33
2595135 TCACTATTTA
*
2595145 TATCGATACATGATACAATGTATCGATACATTG
1 TATCGATACATGAGACAATGTATCGATACATTG
2595178 TATCGATACATGAGGA-AATTGTATCGATACATTG
1 TATCGATACATGA-GACAA-TGTATCGATACATTG
2595212 CTTGTAACGG
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
33 15 0.48
34 16 0.52
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (33 bp):
TATCGATACATGAGACAATGTATCGATACATTG
Found at i:2595985 original size:13 final size:13
Alignment explanation
Indices: 2595967--2595991 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2595957 CATAAAGTGT
2595967 TGTATCGATACAA
1 TGTATCGATACAA
2595980 TGTATCGATACA
1 TGTATCGATACA
2595992 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2595989 original size:33 final size:33
Alignment explanation
Indices: 2595947--2596013 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2595937 TTCAACGATT
2595947 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
2595980 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
2596013 T
1 T
2596014 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:2596072 original size:13 final size:13
Alignment explanation
Indices: 2596054--2596078 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2596044 ATTACTCAAA
2596054 TGTATCGATACAT
1 TGTATCGATACAT
2596067 TGTATCGATACA
1 TGTATCGATACA
2596079 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2596180 original size:52 final size:52
Alignment explanation
Indices: 2596087--2596216 Score: 201
Period size: 52 Copynumber: 2.5 Consensus size: 52
2596077 CACTGATCTT
* *
2596087 TGTATCGATACATGCAGGC-AATTTGCCCAGATGTATCGATACA-TTTTAAAA
1 TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATT-AAA
2596138 TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATTAAA
* *
2596190 TGTATCGATACATGCAAGCAACTTTTC
1 TGTATCGATACATGCAGGCAAATTTTC
2596217 ATATTTCGGG
Statistics
Matches: 73, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
51 19 0.26
52 51 0.70
53 3 0.04
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATTAAA
Found at i:2600158 original size:9 final size:9
Alignment explanation
Indices: 2600144--2600174 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
2600134 TTTTAGGATT
2600144 ATTTTGATG
1 ATTTTGATG
2600153 ATTTTGATG
1 ATTTTGATG
2600162 ATTTTGATG
1 ATTTTGATG
2600171 ATTT
1 ATTT
2600175 GAAGTCATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.19, T:0.58
Consensus pattern (9 bp):
ATTTTGATG
Found at i:2601608 original size:13 final size:13
Alignment explanation
Indices: 2601590--2601617 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2601580 CATTACTCAA
2601590 TGTATCGATACAT
1 TGTATCGATACAT
2601603 TGTATCGATACAT
1 TGTATCGATACAT
2601616 TG
1 TG
2601618 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2601612 original size:33 final size:33
Alignment explanation
Indices: 2601570--2601635 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2601560 GCCAAGGAAA
2601570 TGTATCGATACATT-ACTCAATGTATCGATACAT
1 TGTATCGATACATTGA-TCAATGTATCGATACAT
**
2601603 TGTATCGATACATTGATCTTTGTATCGATACAT
1 TGTATCGATACATTGATCAATGTATCGATACAT
2601636 CTGGGAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 29 0.97
34 1 0.03
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.39
Consensus pattern (33 bp):
TGTATCGATACATTGATCAATGTATCGATACAT
Found at i:2609512 original size:18 final size:17
Alignment explanation
Indices: 2609497--2609541 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
2609487 AGTCAAAAGT
2609497 AAAAACACAAAAAAAAAC
1 AAAAACA-AAAAAAAAAC
*
2609515 AAAAACAAAAAAAACAC
1 AAAAACAAAAAAAAAAC
2609532 ATAAAA-AAAA
1 A-AAAACAAAA
2609542 GAGCGCAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 14 0.56
18 11 0.44
ACGTcount: A:0.84, C:0.13, G:0.00, T:0.02
Consensus pattern (17 bp):
AAAAACAAAAAAAAAAC
Found at i:2610069 original size:20 final size:20
Alignment explanation
Indices: 2610041--2610098 Score: 107
Period size: 20 Copynumber: 2.9 Consensus size: 20
2610031 TACTGCCAAG
*
2610041 GAAATGTATCGATACATTAC
1 GAAACGTATCGATACATTAC
2610061 GAAACGTATCGATACATTAC
1 GAAACGTATCGATACATTAC
2610081 GAAACGTATCGATACATT
1 GAAACGTATCGATACATT
2610099 GTATCGATAC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.40, C:0.17, G:0.16, T:0.28
Consensus pattern (20 bp):
GAAACGTATCGATACATTAC
Found at i:2610104 original size:13 final size:13
Alignment explanation
Indices: 2610086--2610110 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2610076 ATTACGAAAC
2610086 GTATCGATACATT
1 GTATCGATACATT
2610099 GTATCGATACAT
1 GTATCGATACAT
2610111 GGATCTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:2610361 original size:18 final size:18
Alignment explanation
Indices: 2610338--2610377 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
2610328 CAAATTCATT
2610338 GGCTGCCATAGATGCCAA
1 GGCTGCCATAGATGCCAA
2610356 GGCTGCCATAGATGCCAA
1 GGCTGCCATAGATGCCAA
2610374 GGCT
1 GGCT
2610378 ACCAAGCATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.25, C:0.28, G:0.30, T:0.17
Consensus pattern (18 bp):
GGCTGCCATAGATGCCAA
Found at i:2623120 original size:13 final size:13
Alignment explanation
Indices: 2623102--2623126 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2623092 CATTATAGGG
2623102 TGTATCGATACAA
1 TGTATCGATACAA
2623115 TGTATCGATACA
1 TGTATCGATACA
2623127 TATTGTGTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2623144 original size:32 final size:33
Alignment explanation
Indices: 2623079--2623146 Score: 102
Period size: 32 Copynumber: 2.1 Consensus size: 33
2623069 CGTTACAAGC
2623079 CAATGTATCGATACATTATAGGGTGTATCGATA
1 CAATGTATCGATACATTATAGGGTGTATCGATA
* * *
2623112 CAATGTATCGATACA-TATTGTGTGTATTGATA
1 CAATGTATCGATACATTATAGGGTGTATCGATA
2623144 CAA
1 CAA
2623147 ATTTGGCTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 17 0.53
33 15 0.47
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.35
Consensus pattern (33 bp):
CAATGTATCGATACATTATAGGGTGTATCGATA
Found at i:2623226 original size:20 final size:21
Alignment explanation
Indices: 2623179--2623231 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
2623169 GTCAATGACC
**
2623179 TGTATCGATACATTTTTTTCA
1 TGTATCGATACATTTTGGTCA
*
2623200 AGTATCGATACA-TTTGGTCA
1 TGTATCGATACATTTTGGTCA
2623220 TGTATCGATACA
1 TGTATCGATACA
2623232 ATGTATCAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (21 bp):
TGTATCGATACATTTTGGTCA
Found at i:2625230 original size:20 final size:22
Alignment explanation
Indices: 2625191--2625235 Score: 67
Period size: 20 Copynumber: 2.1 Consensus size: 22
2625181 GCTGCTAGTG
*
2625191 TGGGGGCTGCCCGGTTGCGACC
1 TGGGGGCTGCCCGGTCGCGACC
2625213 TGGGGG-TG-CCGGTCGCGACC
1 TGGGGGCTGCCCGGTCGCGACC
2625233 TGG
1 TGG
2625236 TGGATGCTGC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 14 0.64
21 2 0.09
22 6 0.27
ACGTcount: A:0.04, C:0.29, G:0.49, T:0.18
Consensus pattern (22 bp):
TGGGGGCTGCCCGGTCGCGACC
Found at i:2625531 original size:21 final size:21
Alignment explanation
Indices: 2625503--2625543 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 21
2625493 TGTTTTTGTT
2625503 GATGATTTTG-ATGAAAAAAC
1 GATGATTTTGAATGAAAAAAC
2625523 GATGTATTTTGAAATGAAAAA
1 GATG-ATTTTG-AATGAAAAA
2625544 TAAGAAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 6 0.33
23 8 0.44
ACGTcount: A:0.46, C:0.02, G:0.20, T:0.32
Consensus pattern (21 bp):
GATGATTTTGAATGAAAAAAC
Found at i:2631765 original size:13 final size:13
Alignment explanation
Indices: 2631747--2631771 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2631737 CATTTTAGGG
2631747 TGTATCGATACAA
1 TGTATCGATACAA
2631760 TGTATCGATACA
1 TGTATCGATACA
2631772 TATTGTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2633939 original size:15 final size:14
Alignment explanation
Indices: 2633887--2633951 Score: 67
Period size: 15 Copynumber: 4.4 Consensus size: 14
2633877 CCTCCGTAAA
*
2633887 AAAAACAAAGAAAAC
1 AAAAA-AAACAAAAC
* * *
2633902 AAAAAAAAGAGAGAG
1 AAAAAAAACA-AAAC
2633917 AAAAAAAACAAAAC
1 AAAAAAAACAAAAC
2633931 AAAACAAAACAAAAC
1 AAAA-AAAACAAAAC
2633946 AAAAAA
1 AAAAAA
2633952 CAAAAAAAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
14 13 0.30
15 30 0.70
ACGTcount: A:0.82, C:0.11, G:0.08, T:0.00
Consensus pattern (14 bp):
AAAAAAAACAAAAC
Found at i:2633956 original size:5 final size:5
Alignment explanation
Indices: 2633917--2633949 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
2633907 AAAGAGAGAG
2633917 AAAA- AAAAC AAAAC AAAAC AAAAC AAAAC AAAA
1 AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAAA
2633950 AACAAAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 4 0.14
5 24 0.86
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (5 bp):
AAAAC
Found at i:2633959 original size:10 final size:10
Alignment explanation
Indices: 2633884--2633961 Score: 61
Period size: 10 Copynumber: 7.5 Consensus size: 10
2633874 CATCCTCCGT
2633884 AAAAAAAACA
1 AAAAAAAACA
2633894 AAGAAAACAA-A
1 AA-AAAA-AACA
* *
2633905 AAAAAGAGAGA
1 AAAAA-AAACA
2633916 GAAAAAAAACA
1 -AAAAAAAACA
*
2633927 AAACAAAACA
1 AAAAAAAACA
*
2633937 AAACAAAACA
1 AAAAAAAACA
2633947 AAAAACAAA-A
1 AAAAA-AAACA
2633957 AAAAA
1 AAAAA
2633962 GGGTCCGGAT
Statistics
Matches: 57, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
10 35 0.61
11 15 0.26
12 7 0.12
ACGTcount: A:0.83, C:0.10, G:0.06, T:0.00
Consensus pattern (10 bp):
AAAAAAAACA
Found at i:2633959 original size:15 final size:14
Alignment explanation
Indices: 2633886--2633959 Score: 58
Period size: 15 Copynumber: 4.9 Consensus size: 14
2633876 TCCTCCGTAA
2633886 AAAAAACAAAGAAAAC
1 AAAAAA-AAA-AAAAC
* * *
2633902 AAAAAAAAGAGAGAG
1 AAAAAAAA-AAAAAC
*
2633917 AAAAAAAACAAAAC
1 AAAAAAAAAAAAAC
*
2633931 AAAACAAAACAAAAC
1 AAAA-AAAAAAAAAC
2633946 AAAAAACAAAAAAA
1 AAAAAA-AAAAAAA
2633960 AAGGGTCCGG
Statistics
Matches: 47, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
14 8 0.17
15 32 0.68
16 7 0.15
ACGTcount: A:0.82, C:0.11, G:0.07, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAAAAC
Found at i:2635497 original size:49 final size:49
Alignment explanation
Indices: 2635437--2636380 Score: 846
Period size: 49 Copynumber: 19.8 Consensus size: 49
2635427 GGCATCTTCT
* * *
2635437 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTC
1 TTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTATC
* * * *
2635486 TTTAAGACCAATGTCGCTGACCTTGAATTAGCACATTGGCACCTTCA-C
1 TTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTATC
* * *
2635534 TTTTAA-ATCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTTGTC
1 -TTTAAGA-CCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTATC
* * * *
2635584 TTTAAGACCAATGTCGCTGACCTTGAATCAGCACATTGGCACCTTCACC
1 TTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTATC
* *
2635633 TTTAA-ATCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTC
1 TTTAAGA-CCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTATC
* *
2635682 TTCAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-C-----C
1 TTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTATC
* * *
2635725 TTTAAGACCAATGT-GACAGGCTTTGAATCAGCACATTGGCA-C-----C
1 TTTAAGACCAATATCG-CTGGCCTTGAATCAGCACATTGGCACCTTTATC
* * * * *
2635768 TTTAAGTCCAATGTCGCTGACCTTGAATCAGCACATTGGCACCTTCACC
1 TTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTATC
* * * *
2635817 TTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTTGTC
1 TTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTATC
* * *
2635866 TTTAAGACCAATATCGCTGGCCTTGAATCAACACATTGGCACCTTCACC
1 TTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTATC
* * * * **
2635915 TTTAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTTGCC
1 TTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTATC
* *
2635964 TTTAAGACCAATGTCGTTGGCCTTGAATCAGCACATTGGCA-C-----C
1 TTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTATC
* * * * *
2636007 TTTAAGACCAATGTGGCAGGCCTTGAATCAACACATTGGC-GC-----C
1 TTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTATC
* *
2636050 TTTAAGTCCAATATTGCTGGCCTTGAATCAGCACATTGGCA-C-----C
1 TTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTATC
*
2636093 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTATC
1 TTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTATC
* * *
2636142 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
1 TTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTATC
* * * ** * * **
2636191 TTTAAGACCGATGTCGTTGGCCTTGAATCAATACATCGGGACCTCAACCATC
1 TTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCT---TTATC
* * * * *
2636243 TTTAAGCCCAATATCGTTGGCCTTGAATCAACATATTGGCA--TGTCATC
1 TTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCT-TTATC
* * * *
2636291 GTTAAGTCCAATATCGTTGGCCTTGAATCAGCACATTGGCATTCTTCTCATC
1 TTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA-CCTT-T-ATC
* * * * *
2636343 TTCAAGTCTAATGTCGCT-GACTGTGAATCAGCACATTG
1 TTTAAGACCAATATCGCTGGCCT-TGAATCAGCACATTG
2636381 ACATTCTTTA
Statistics
Matches: 760, Mismatches: 104, Indels: 59
0.82 0.11 0.06
Matches are distributed among these distances:
42 1 0.00
43 190 0.25
44 3 0.00
48 45 0.06
49 443 0.58
50 5 0.01
51 4 0.01
52 69 0.09
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (49 bp):
TTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTATC
Found at i:2635604 original size:98 final size:97
Alignment explanation
Indices: 2635437--2636380 Score: 948
Period size: 98 Copynumber: 9.9 Consensus size: 97
2635427 GGCATCTTCT
*
2635437 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCG
1 TTTAAATCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCG
* *
2635502 CTGACCTTGAATTAGCACATTGGCACCTTCAC
66 CTGGCCTTGAATCAGCACATTGGCACCTTCAC
*
2635534 TTTTAAATCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTC
1 -TTTAAATCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTC
*
2635599 GCTGACCTTGAATCAGCACATTGGCACCTTCACC
65 GCTGGCCTTGAATCAGCACATTGGCACCTTCA-C
*
2635633 TTTAAATCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTCAAGACCAATGTCG
1 TTTAAATCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCG
2635698 CTGGCCTTGAATCAGCACATTGGCA----C-C
66 CTGGCCTTGAATCAGCACATTGGCACCTTCAC
* * * * *
2635725 TTTAAGA-CCAATGT-GACAGGCTTTGAATCAGCACATTGGCA-C-----CTTTAAGTCCAATGT
1 TTTAA-ATCCAATATCG-CTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGT
*
2635782 CGCTGACCTTGAATCAGCACATTGGCACCTTCACC
64 CGCTGGCCTTGAATCAGCACATTGGCACCTTCA-C
* * *
2635817 TTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATATCG
1 TTTAAATCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCG
*
2635882 CTGGCCTTGAATCAACACATTGGCACCTTCACC
66 CTGGCCTTGAATCAGCACATTGGCACCTTCA-C
* * * *
2635915 TTTAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTTGCCTTTAAGACCAATGTCG
1 TTTAAATCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCG
*
2635980 TTGGCCTTGAATCAGCACATTGGCA----C-C
66 CTGGCCTTGAATCAGCACATTGGCACCTTCAC
* * * * * * * * *
2636007 TTTAAGA-CCAATGTGGCAGGCCTTGAATCAACACATTGG---C---GCCTTTAAGTCCAATATT
1 TTTAA-ATCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTC
2636065 GCTGGCCTTGAATCAGCACATTGGCA----C-C
65 GCTGGCCTTGAATCAGCACATTGGCACCTTCAC
* * * *
2636093 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTCG
1 TTTAAATCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCG
2636158 CTGGCCTTGAATCAGCACATTGGCACCTTCATC
66 CTGGCCTTGAATCAGCACATTGGCACCTTCA-C
* * * ** * * * *** *
2636191 TTTAAGA-CCGATGTCGTTGGCCTTGAATCAATACATCGGGACCTCAACCATCTTTAAGCCCAAT
1 TTTAA-ATCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCT---TTGTCTTTAAGACCAAT
* * * *
2636255 ATCGTTGGCCTTGAATCAACATATTGGCA--TGTCATC
62 GTCGCTGGCCTTGAATCAGCACATTGGCACCT-TCA-C
* * * * * * * * *
2636291 GTTAAGTCCAATATCGTTGGCCTTGAATCAGCACATTGGCATTCTTCTCATCTTCAAGTCTAATG
1 TTTAAATCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CCTT-T-GTCTTTAAGACCAATG
*
2636356 TCGCT-GACTGTGAATCAGCACATTG
63 TCGCTGGCCT-TGAATCAGCACATTG
2636381 ACATTCTTTA
Statistics
Matches: 720, Mismatches: 85, Indels: 80
0.81 0.10 0.09
Matches are distributed among these distances:
86 114 0.16
89 1 0.00
90 1 0.00
91 2 0.00
92 139 0.19
93 3 0.00
94 2 0.00
96 1 0.00
98 345 0.48
99 5 0.01
100 66 0.09
101 41 0.06
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (97 bp):
TTTAAATCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCG
CTGGCCTTGAATCAGCACATTGGCACCTTCAC
Found at i:2635751 original size:43 final size:43
Alignment explanation
Indices: 2635685--2636186 Score: 493
Period size: 43 Copynumber: 11.0 Consensus size: 43
2635675 CTTTGTCTTC
2635685 AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTT
1 AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTT
* *
2635728 AAGACCAATGT-GACAGGCTTTGAATCAGCACATTGGCACCTTT
1 AAGACCAATGTCG-CTGGCCTTGAATCAGCACATTGGCACCTTT
* *
2635771 AAGTCCAATGTCGCTGACCTTGAATCAGCACATTGGCACCTTCACCTTT
1 AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGG------CACCTTT
* * * *
2635820 AAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTT
1 AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-C-----CTTT
* *
2635869 AAGACCAATATCGCTGGCCTTGAATCAACACATTGGCACCTTCACCTTT
1 AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGG------CACCTTT
* * * *
2635918 AAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTTGCCTTT
1 AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA------CCTTT
*
2635967 AAGACCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTT
1 AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTT
* * * *
2636010 AAGACCAATGTGGCAGGCCTTGAATCAACACATTGGCGCCTTT
1 AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTT
* * *
2636053 AAGTCCAATATTGCTGGCCTTGAATCAGCACATTGGCACCTTT
1 AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTT
* *
2636096 AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTT
1 AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-C-----CTTT
*
2636145 AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT
1 AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT
2636187 CATCTTTAAG
Statistics
Matches: 391, Mismatches: 36, Indels: 64
0.80 0.07 0.13
Matches are distributed among these distances:
42 1 0.00
43 193 0.49
44 3 0.01
48 1 0.00
49 190 0.49
54 1 0.00
55 2 0.01
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.29
Consensus pattern (43 bp):
AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTT
Found at i:2635989 original size:282 final size:282
Alignment explanation
Indices: 2635485--2636220 Score: 1169
Period size: 282 Copynumber: 2.6 Consensus size: 282
2635475 GCACCTTTGT
* * * *
2635485 CTTTAAGACCAATGTCGCTGACCTTGAATTAGCACATTGGCACCTTCACTTTTAAATCCAATATC
1 CTTTAAGTCCAATGTCGCTGACCTTGAATCAGCACATTGGCACCTTCACCTTTAAGTCCAATATC
*
2635550 GTTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCGCTGACCTTGAATCAG
66 GTTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAG
*
2635615 CACATTGGCACCTTCACCTTTAAATCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTG
131 CACATTGGCACCTTCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTG
*
2635680 TCTTCAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGACCAATGTGACAGG
196 CCTTCAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGACCAATGTGACAGG
* *
2635745 CTTTGAATCAGCACATTGGCAC
261 CCTTGAATCAACACATTGGCAC
2635767 CTTTAAGTCCAATGTCGCTGACCTTGAATCAGCACATTGGCACCTTCACCTTTAAGTCCAATATC
1 CTTTAAGTCCAATGTCGCTGACCTTGAATCAGCACATTGGCACCTTCACCTTTAAGTCCAATATC
* *
2635832 GTTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATATCGCTGGCCTTGAATCAA
66 GTTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAG
* *
2635897 CACATTGGCACCTTCACCTTTAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTTG
131 CACATTGGCACCTTCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTG
* * *
2635962 CCTTTAAGACCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTTAAGACCAATGTGGCAGG
196 CCTTCAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGACCAATGTGACAGG
*
2636027 CCTTGAATCAACACATTGGCGC
261 CCTTGAATCAACACATTGGCAC
* * *
2636049 CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCACATTGG------CACCTTTAAGTCCAATATC
1 CTTTAAGTCCAATGTCGCTGACCTTGAATCAGCACATTGGCACCTTCACCTTTAAGTCCAATATC
* * * *
2636108 GCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAG
66 GTTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAG
* * * * *
2636173 CACATTGGCACCTTCATCTTTAAGACCGATGTCGTTGGCCTTGAATCA
131 CACATTGGCACCTTCACCTTTAAGTCCAATATCGCTGGCCTTGAATCA
2636221 ATACATCGGG
Statistics
Matches: 422, Mismatches: 32, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
276 120 0.28
282 302 0.72
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.30
Consensus pattern (282 bp):
CTTTAAGTCCAATGTCGCTGACCTTGAATCAGCACATTGGCACCTTCACCTTTAAGTCCAATATC
GTTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAG
CACATTGGCACCTTCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTG
CCTTCAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGACCAATGTGACAGG
CCTTGAATCAACACATTGGCAC
Found at i:2636050 original size:21 final size:21
Alignment explanation
Indices: 2635983--2636094 Score: 52
Period size: 21 Copynumber: 5.2 Consensus size: 21
2635973 AATGTCGTTG
*
2635983 GCCTTGAATCAGCACATTGGC
1 GCCTTGAATCAACACATTGGC
* * * *
2636004 ACCTTTAA-GACCA-ATGTGGC
1 GCCTTGAATCAACACAT-TGGC
2636024 AGGCCTTGAATCAACACATTGGC
1 --GCCTTGAATCAACACATTGGC
* * *
2636047 GCCTTTAAGTCCA-ATATT-GC
1 GCCTTGAA-TCAACACATTGGC
*
2636067 TGGCCTTGAATCAGCACATTGGC
1 --GCCTTGAATCAACACATTGGC
*
2636090 ACCTT
1 GCCTT
2636095 TAAGTCCAAT
Statistics
Matches: 65, Mismatches: 16, Indels: 20
0.64 0.16 0.20
Matches are distributed among these distances:
19 2 0.03
20 9 0.14
21 23 0.35
22 20 0.31
23 9 0.14
24 2 0.03
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.27
Consensus pattern (21 bp):
GCCTTGAATCAACACATTGGC
Found at i:2636370 original size:100 final size:99
Alignment explanation
Indices: 2636049--2636380 Score: 324
Period size: 100 Copynumber: 3.4 Consensus size: 99
2636039 ACATTGGCGC
* * *
2636049 CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCACATTGGCAC--C-T--TTAAGTCCAATATCG
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAACACATTGGCACTTCATCGTTAAGTCCAATATCG
* *
2636109 CTGGCCTTGAATCAGCACATTGGCACCTT-T-AT
66 TTGGCCTTGAATCAGCACATTGGCATCTTCTCAT
* * * * *
2636141 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGACCGATGTC
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAACACATTGGCA-CTTCATCGTTAAGTCCAATATC
** * * * *
2636206 GTTGGCCTTGAATCAATACATCGGGA-CCTCAACCAT
65 GTTGGCCTTGAATCAGCACATTGGCATCTTC--TCAT
* * * *
2636242 CTTTAAGCCCAATATCGTTGGCCTTGAATCAACATATTGGCA-TGTCATCGTTAAGTCCAATATC
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAACACATTGGCACT-TCATCGTTAAGTCCAATATC
2636306 GTTGGCCTTGAATCAGCACATTGGCATTCTTCTCAT
65 GTTGGCCTTGAATCAGCACATTGGCA-TCTTCTCAT
* * * *
2636342 CTTCAAGTCTAATGTCGCT-GACTGTGAATCAGCACATTG
1 CTTTAAGTCCAATGTCGCTGGCCT-TGAATCAACACATTG
2636381 ACATTCTTTA
Statistics
Matches: 191, Mismatches: 35, Indels: 20
0.78 0.14 0.08
Matches are distributed among these distances:
92 40 0.21
93 1 0.01
95 1 0.01
96 1 0.01
97 2 0.01
98 32 0.17
99 4 0.02
100 68 0.36
101 39 0.20
102 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (99 bp):
CTTTAAGTCCAATGTCGCTGGCCTTGAATCAACACATTGGCACTTCATCGTTAAGTCCAATATCG
TTGGCCTTGAATCAGCACATTGGCATCTTCTCAT
Found at i:2637114 original size:13 final size:13
Alignment explanation
Indices: 2637096--2637120 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2637086 TTCAACAATT
2637096 TGTATCGATACAA
1 TGTATCGATACAA
2637109 TGTATCGATACA
1 TGTATCGATACA
2637121 TAAGTGTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2641571 original size:32 final size:31
Alignment explanation
Indices: 2641500--2642224 Score: 775
Period size: 32 Copynumber: 22.8 Consensus size: 31
2641490 CAAATCTCTC
*
2641500 TTCTCAAAGTCCACGACTCAGTGGCATC-TC
1 TTCTCAAAGTCCACGACTCAGTGGCATCTTT
** *
2641530 TTCTCAAAGTCCATAACTCAGTGGTATCTATT
1 TTCTCAAAGTCCACGACTCAGTGGCATCT-TT
*
2641562 TTCTCAAAGTCCACAACTCAGTGGCATCTCTT
1 TTCTCAAAGTCCACGACTCAGTGGCATCT-TT
2641594 TTCTCAAAGTCCACGACTCAGTGGCATCTTTT
1 TTCTCAAAGTCCACGACTCAGTGGCATC-TTT
* * *
2641626 TTCTTCAAAGTCTACAACTCAGTGGCAATC-TC
1 TTC-TCAAAGTCCACGACTCAGTGGC-ATCTTT
* *
2641658 TTCTCAAAGTCCATGACTCAATGGCATCTTT
1 TTCTCAAAGTCCACGACTCAGTGGCATCTTT
* * *
2641689 TTTTCAAAGTCCACGACTCAATGGCATCCTT
1 TTCTCAAAGTCCACGACTCAGTGGCATCTTT
* * *
2641720 TTCTTCCAAGTCCATGACTCAATGGCATCTTTT
1 TTC-TCAAAGTCCACGACTCAGTGGCATC-TTT
*
2641753 TTCTTTAAAGTCCACGACTCAGTGGCAATCTCTT
1 TTC-TCAAAGTCCACGACTCAGTGGC-ATCT-TT
*
2641787 TTCT--AAGTCCACGACTCAATGGCATCCTTT
1 TTCTCAAAGTCCACGACTCAGTGGCAT-CTTT
*
2641817 TCTTTC-AAGTCCACGACTCAGTGGCATCTTTT
1 T-TCTCAAAGTCCACGACTCAGTGGCATC-TTT
* *
2641849 TTCTTCAAAGTCCATGACTCAGTGGCAATC-TC
1 TTC-TCAAAGTCCACGACTCAGTGGC-ATCTTT
*
2641881 TTCTCAAAGTCCACGACTCAGTGGCATC-TC
1 TTCTCAAAGTCCACGACTCAGTGGCATCTTT
**
2641911 TTCTCAAAGTCCGTGACTCAGTGGCATCTCTT
1 TTCTCAAAGTCCACGACTCAGTGGCATCT-TT
*
2641943 TTCTCAAAGTCCACAACTCAGTGGCATCTTT
1 TTCTCAAAGTCCACGACTCAGTGGCATCTTT
* *
2641974 TTTTCAAAGTCCACGACTCAGTGGCATCCTT
1 TTCTCAAAGTCCACGACTCAGTGGCATCTTT
*
2642005 TTCTTCCAAGTCCACGACTCAGTGGCATCTTTT
1 TTC-TCAAAGTCCACGACTCAGTGGCATC-TTT
* *
2642038 TTCTTTAAAGTCCACGACTTAGTGGCAATCTTT
1 TTC-TCAAAGTCCACGACTCAGTGGC-ATCTTT
* *
2642071 TT-TCTAAGTCCACGACTCAGTGGCATCCTT
1 TTCTCAAAGTCCACGACTCAGTGGCATCTTT
* *
2642101 TTCTTCCATGTCCACGACTCAGTGGCATCTTTT
1 TTC-TCAAAGTCCACGACTCAGTGGCATC-TTT
* **
2642134 TTCTTCAAAGTCCACGACTCAATGGCATC-CC
1 TTC-TCAAAGTCCACGACTCAGTGGCATCTTT
* * *
2642165 TTCTCAAAGTTCACGACTCTGTGGCACCTTT
1 TTCTCAAAGTCCACGACTCAGTGGCATCTTT
* *
2642196 TTCTTTTCAAAGTCCACAACTCTGTGGCA
1 TTC---TCAAAGTCCACGACTCAGTGGCA
2642225 CCCTTTTAAG
Statistics
Matches: 597, Mismatches: 69, Indels: 54
0.83 0.10 0.08
Matches are distributed among these distances:
30 92 0.15
31 151 0.25
32 193 0.32
33 123 0.21
34 38 0.06
ACGTcount: A:0.23, C:0.29, G:0.15, T:0.34
Consensus pattern (31 bp):
TTCTCAAAGTCCACGACTCAGTGGCATCTTT
Found at i:2642004 original size:285 final size:285
Alignment explanation
Indices: 2641496--2642258 Score: 1044
Period size: 285 Copynumber: 2.7 Consensus size: 285
2641486 TCTTCAAATC
* * * ** *
2641496 TCTCTTCTCAAAGTCCACGACTCAGTGGCAT-CTCTTC--TCAAAGTCCATAACTCAGTGGTATC
1 TCTCTTTTCTAAGTCCACGACTCAGTGGCATCCTTTTCTTTC-AAGTCCACGACTCAGTGGCATC
* *
2641558 TATTTTC-TCAAAGTCCACAACTCAGTGGCATCTCTTTTCTCAAAGTCCACGACTCAGTGGCATC
65 TTTTTTCTTCAAAGTCCACGACTCAGTGGCATCTC--TTCTCAAAGTCCACGACTCAGTGGCATC
* * **
2641622 TTTTTTCTTCAAAGTCTACAACTCAGTGGCAATCTCTTCTCAAAGTCCATGACTCAATGGCATCT
128 -TTCTTCTTCAAAGTCCACAACTCAGTGGCAATCTCTTCTCAAAGTCCACAACTCAATGGCATCT
*
2641687 TTTTTTCAAAGTCCACGACTCAATGGCATCCTTTTCTTCCAAGTCCATGACTCAATGGCATCTTT
192 TTTTTTCAAAGTCCACGACTCAATGGCATCCTTTTCTTCCAAGTCCACGACTCAATGGCATCTTT
2641752 TTTCTTTAAAGTCCACGACTCAGTGGCAA
257 TTTCTTTAAAGTCCACGACTCAGTGGCAA
*
2641781 TCTCTTTTCTAAGTCCACGACTCAATGGCATCCTTTTCTTTCAAGTCCACGACTCAGTGGCATCT
1 TCTCTTTTCTAAGTCCACGACTCAGTGGCATCCTTTTCTTTCAAGTCCACGACTCAGTGGCATCT
*
2641846 TTTTTCTTCAAAGTCCATGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGCATC-T
66 TTTTTCTTCAAAGTCCACGACTCAGTGGC-ATCTCTTCTCAAAGTCCACGACTCAGTGGCATCTT
*** *
2641910 CTTC-TCAAAGTCCGTGACTCAGTGGC-ATCTCTTTTCTCAAAGTCCACAACTCAGTGGCATCTT
130 CTTCTTCAAAGTCCACAACTCAGTGGCAATCTC--TTCTCAAAGTCCACAACTCAATGGCATCTT
* *
2641973 TTTTTCAAAGTCCACGACTCAGTGGCATCCTTTTCTTCCAAGTCCACGACTCAGTGGCATCTTTT
193 TTTTTCAAAGTCCACGACTCAATGGCATCCTTTTCTTCCAAGTCCACGACTCAATGGCATCTTTT
*
2642038 TTCTTTAAAGTCCACGACTTAGTGGCAA
258 TTCTTTAAAGTCCACGACTCAGTGGCAA
* * *
2642066 TCTTTTTTCTAAGTCCACGACTCAGTGGCATCCTTTTCTTCCATGTCCACGACTCAGTGGCATCT
1 TCTCTTTTCTAAGTCCACGACTCAGTGGCATCCTTTTCTTTCAAGTCCACGACTCAGTGGCATCT
* * * * * *
2642131 TTTTTCTTCAAAGTCCACGACTCAATGGCATCCCTTCTCAAAGTTCACGACTCTGTGGCACCTTT
66 TTTTTCTTCAAAGTCCACGACTCAGTGGCATCTCTTCTCAAAGTCCACGACTCAGTGGCATCTTC
* * * * *
2642196 TTCTTTTCAAAGTCCACAACTCTGTGGC-A-CCCTT-T-TAAGTCCACAACTCCATGGCACCTTT
131 TTC--TTCAAAGTCCACAACTCAGTGGCAATCTCTTCTCAAAGTCCACAACTCAATGGCATCTTT
2642257 TT
194 TT
2642259 CTTTTCAAAA
Statistics
Matches: 425, Mismatches: 42, Indels: 24
0.87 0.09 0.05
Matches are distributed among these distances:
283 29 0.07
284 48 0.11
285 242 0.57
286 5 0.01
287 55 0.13
288 41 0.10
289 5 0.01
ACGTcount: A:0.23, C:0.29, G:0.14, T:0.34
Consensus pattern (285 bp):
TCTCTTTTCTAAGTCCACGACTCAGTGGCATCCTTTTCTTTCAAGTCCACGACTCAGTGGCATCT
TTTTTCTTCAAAGTCCACGACTCAGTGGCATCTCTTCTCAAAGTCCACGACTCAGTGGCATCTTC
TTCTTCAAAGTCCACAACTCAGTGGCAATCTCTTCTCAAAGTCCACAACTCAATGGCATCTTTTT
TTCAAAGTCCACGACTCAATGGCATCCTTTTCTTCCAAGTCCACGACTCAATGGCATCTTTTTTC
TTTAAAGTCCACGACTCAGTGGCAA
Found at i:2642257 original size:61 final size:61
Alignment explanation
Indices: 2642110--2642353 Score: 244
Period size: 61 Copynumber: 4.0 Consensus size: 61
2642100 TTTCTTCCAT
* * * * ** *
2642110 GTCCACGACT-CAGTGGCATCTTTTT-TCTTCAAAGTCCACGACTCAATGGCATCCCTTCTCAAA
1 GTCCACAACTCCA-TGGCACCTTTTTCTTTTCAAAGTCCACAACTCTGTGGCA-CCCTT-T-TAA
* * **
2642173 GTTCACGACTCTGTGGCACCTTTTTCTTTTCAAAGTCCACAACTCTGTGGCACCCTTTTAA
1 GTCCACAACTCCATGGCACCTTTTTCTTTTCAAAGTCCACAACTCTGTGGCACCCTTTTAA
* * *
2642234 GTCCACAACTCCATGGCACCTTTTTCTTTTCAAAATCCAAAACTCTGTGGTACCCTTTTAA
1 GTCCACAACTCCATGGCACCTTTTTCTTTTCAAAGTCCACAACTCTGTGGCACCCTTTTAA
* * * *
2642295 GTCCACAACTCCGTGGCACTTTTTTCCTTTT-AAAG-CCTACAACTCCGTGGCACTCTTTT
1 GTCCACAACTCCATGGCACCTTTTT-CTTTTCAAAGTCC-ACAACTCTGTGGCACCCTTTT
2642354 CCCTTTTAAG
Statistics
Matches: 154, Mismatches: 23, Indels: 10
0.82 0.12 0.05
Matches are distributed among these distances:
60 2 0.01
61 99 0.64
62 6 0.04
63 25 0.16
64 22 0.14
ACGTcount: A:0.22, C:0.31, G:0.13, T:0.34
Consensus pattern (61 bp):
GTCCACAACTCCATGGCACCTTTTTCTTTTCAAAGTCCACAACTCTGTGGCACCCTTTTAA
Found at i:2642319 original size:27 final size:27
Alignment explanation
Indices: 2642205--2642313 Score: 101
Period size: 27 Copynumber: 3.8 Consensus size: 27
2642195 TTTCTTTTCA
*
2642205 AAGTCCACAACTCTGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
*
2642232 AAGTCCACAACTCCATGGCACCTTTTTCTTTT
1 AAGTCCACAACTCCGTGGCACC-----CTTTT
* * * *
2642264 CAAAATCCAAAACTCTGTGGTACCCTTTT
1 --AAGTCCACAACTCCGTGGCACCCTTTT
2642293 AAGTCCACAACTCCGTGGCAC
1 AAGTCCACAACTCCGTGGCAC
2642314 TTTTTTCCTT
Statistics
Matches: 64, Mismatches: 11, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
27 37 0.58
29 5 0.08
32 5 0.08
34 17 0.27
ACGTcount: A:0.26, C:0.32, G:0.13, T:0.29
Consensus pattern (27 bp):
AAGTCCACAACTCCGTGGCACCCTTTT
Found at i:2642340 original size:34 final size:33
Alignment explanation
Indices: 2642286--2642419 Score: 139
Period size: 34 Copynumber: 4.0 Consensus size: 33
2642276 CTCTGTGGTA
2642286 CCCTTTTAAGTCCACAACTCCGTGGCACT-TTTT
1 CCCTTTTAAG-CCACAACTCCGTGGCACTCTTTT
*
2642319 TCCTTTTAAAGCCTACAACTCCGTGGCACTCTTTT
1 CCCTTTT-AAGCC-ACAACTCCGTGGCACTCTTTT
* *
2642354 CCCTTTTAAGCCCACACCTCCGTGGCATCCCTTTT
1 CCCTTTTAAG-CCACAACTCCGTGGCA-CTCTTTT
* * *
2642389 TCC-TGTAAGTCCATAACTCCGTGGCAC-CTTT
1 CCCTTTTAAG-CCACAACTCCGTGGCACTCTTT
2642420 AAGCCCAATG
Statistics
Matches: 87, Mismatches: 9, Indels: 11
0.81 0.08 0.10
Matches are distributed among these distances:
32 4 0.05
33 9 0.10
34 54 0.62
35 20 0.23
ACGTcount: A:0.18, C:0.35, G:0.13, T:0.34
Consensus pattern (33 bp):
CCCTTTTAAGCCACAACTCCGTGGCACTCTTTT
Found at i:2642407 original size:68 final size:67
Alignment explanation
Indices: 2642286--2642419 Score: 166
Period size: 68 Copynumber: 2.0 Consensus size: 67
2642276 CTCTGTGGTA
* * *
2642286 CCCTTTTAAGTCCACAACTCCGTGGCACTTTTTTCCTTTTAAAGCCTACAACTCCGTGGCACTCT
1 CCCTTTTAAGCCCACAACTCCGTGGCACCTTTTTCCTTGTAAAGCCTACAACTCCGTGGCAC-CT
2642351 TTT
65 TTT
* *
2642354 CCCTTTTAAGCCCACACCTCCGTGGCATCCCTTTTTCC-TGT-AAGTCC-ATAACTCCGTGGCAC
1 CCCTTTTAAGCCCACAACTCCGTGGCA--CCTTTTTCCTTGTAAAG-CCTACAACTCCGTGGCAC
2642416 CTTT
63 CTTT
2642420 AAGCCCAATG
Statistics
Matches: 58, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
67 4 0.07
68 42 0.72
69 4 0.07
70 8 0.14
ACGTcount: A:0.18, C:0.35, G:0.13, T:0.34
Consensus pattern (67 bp):
CCCTTTTAAGCCCACAACTCCGTGGCACCTTTTTCCTTGTAAAGCCTACAACTCCGTGGCACCTT
TT
Found at i:2642479 original size:39 final size:39
Alignment explanation
Indices: 2642419--2642885 Score: 313
Period size: 39 Copynumber: 11.0 Consensus size: 39
2642409 GTGGCACCTT
* * * *
2642419 TAAGCCCAATGTCACTAGCCTTGAATCAGCACATTGGCA
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
*
2642458 TAAGCCCAATATCGCTGGCCTTGAATCAACATATTGGCATCTTCA
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGG------CA
* * * *
2642503 TCTTTAAGTCAAATATCGCTAGCCTTGAATCAGCACATTGGCA
1 ----TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
* * *
2642546 CAAGCCCAATGTCGCTGGCCTTGAATCAGCAAATTGGCA
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
* *
2642585 TAAGCCCAATATCGCTAGCCTTGAATCAACATATTGGCA
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
* * * *
2642624 TCTTGTCTTTAAGACCAATGTCGCTGGCCTTGAATTAGCACATTGGCA
1 ---------TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
2642672 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
* * *
2642711 CCTTGTCTTTAAGACCAATGTCACTGGCCTTGAATCAGCATATTGGCA
1 ---------TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
* *
2642759 CAAGCCCAATATCGCTGGCCTTGAATCAGCATATTAGCA
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
* * * * *
2642798 CCTTCATCTTTAGGACCAATGTCGTTGACCTTGAATCAGCACATTGGCA
1 ---T-A-----A-GCCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
* * *
2642847 CAAGCCCAATATTGCTGGCTTTGAATCAGCATATTGGCA
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
2642886 CCTTCATCTT
Statistics
Matches: 336, Mismatches: 54, Indels: 76
0.72 0.12 0.16
Matches are distributed among these distances:
39 197 0.59
40 1 0.00
43 3 0.01
45 3 0.01
48 70 0.21
49 62 0.18
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.28
Consensus pattern (39 bp):
TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
Found at i:2642669 original size:48 final size:48
Alignment explanation
Indices: 2642585--2643184 Score: 387
Period size: 48 Copynumber: 12.8 Consensus size: 48
2642575 CAAATTGGCA
* * * *
2642585 TAAGCCCAATATCGCTAGCCTTGAATCAACATATTGGCATCTTGTCTT
1 TAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTATCTT
* * *
2642633 TAAGACCAATGTCGCTGGCCTTGAATTAGCACATTGG---C--A----
1 TAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTATCTT
* * *
2642672 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTT
1 TAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTATCTT
* *
2642720 TAAGACCAATGTCACTGGCCTTGAATCAGCATATTGG---C--A-C--
1 TAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTATCTT
* * *
2642760 -AAGCCCAATATCGCTGGCCTTGAATCAGCATATTAGCACCTTCATCTT
1 TAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTT-ATCTT
* * * * *
2642808 TAGGACCAATGTCGTTGACCTTGAATCAGCACATTGG---C--A-C--
1 TAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTATCTT
* * * *
2642848 -AAGCCCAATATTGCTGGCTTTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTT-ATCTT
* * * * *
2642896 TAAGACCGATGTCGTTGGCCTTAAATCAGCACATTGGCA-CTTTAACCATCTT
1 TAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCATC-TT----ATCTT
* * * * * * *
2642948 TAAGTCTAATGTCTC-GACCTTGAATTAGCACATTGGCATCTTCATCTT
1 TAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTT-ATCTT
* * * **
2642996 TAAGTCCGATATCGCTGGCCTTGGATCAGCATATT-ATATCTTTATCTT
1 TAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCATC-TTATCTT
* * *
2643044 TAAGACCAATATCACTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
1 TAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTT-ATCTT
* ** * *
2643093 TAAGTCTGATATCGTTGGCCTTGAATCAGCATATTGGCATCTTTAACATTT
1 TAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCATC-TTATC--TT
* * **
2643144 CTAAGCCCAATGTCGCTGGCCTTGTCTCAGCATATTGGCAT
1 -TAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCAT
2643185 TCTTCTTCAA
Statistics
Matches: 426, Mismatches: 84, Indels: 80
0.72 0.14 0.14
Matches are distributed among these distances:
39 93 0.22
42 5 0.01
43 1 0.00
45 4 0.01
46 3 0.01
48 123 0.29
49 121 0.28
50 2 0.00
51 24 0.06
52 50 0.12
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.32
Consensus pattern (48 bp):
TAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTATCTT
Found at i:2642697 original size:87 final size:88
Alignment explanation
Indices: 2642551--2642935 Score: 576
Period size: 87 Copynumber: 4.4 Consensus size: 88
2642541 TGGCACAAGC
* * * *
2642551 CCAATGTCGCTGGCCTTGAATCAGCAAATTGGCATAAGCCCAATATCGCTAGCCTTGAATCAACA
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGCCCAATATCGCTGGCCTTGAATCAGCA
* *
2642616 TATTGGCATCTT-GTCTTTAAGA
66 TATTGGCACCTTCATCTTTAAGA
* *
2642638 CCAATGTCGCTGGCCTTGAATTAGCACATTGGCATAAGCCCAATATCGCTGGCCTTGAATCAGCA
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGCCCAATATCGCTGGCCTTGAATCAGCA
*
2642703 TATTGGCACCTT-GTCTTTAAGA
66 TATTGGCACCTTCATCTTTAAGA
* *
2642725 CCAATGTCACTGGCCTTGAATCAGCATATTGGCACAAGCCCAATATCGCTGGCCTTGAATCAGCA
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGCCCAATATCGCTGGCCTTGAATCAGCA
* *
2642790 TATTAGCACCTTCATCTTTAGGA
66 TATTGGCACCTTCATCTTTAAGA
* * * *
2642813 CCAATGTCGTTGACCTTGAATCAGCACATTGGCACAAGCCCAATATTGCTGGCTTTGAATCAGCA
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGCCCAATATCGCTGGCCTTGAATCAGCA
2642878 TATTGGCACCTTCATCTTTAAGA
66 TATTGGCACCTTCATCTTTAAGA
* * *
2642901 CCGATGTCGTTGGCCTTAAATCAGCACATTGGCAC
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
2642936 TTTAACCATC
Statistics
Matches: 274, Mismatches: 23, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
87 154 0.56
88 120 0.44
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (88 bp):
CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGCCCAATATCGCTGGCCTTGAATCAGCA
TATTGGCACCTTCATCTTTAAGA
Found at i:2643104 original size:97 final size:98
Alignment explanation
Indices: 2642852--2643227 Score: 323
Period size: 100 Copynumber: 3.8 Consensus size: 98
2642842 TGGCACAAGC
** * * * *
2642852 CCAATATTGCTGGCTTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCGATGTCGTTGGCCT
1 CCAATATCACTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCGATATCGTTGGCCT
* * * *
2642917 TAAATCAGCACATTGGCACTTTAACCATCTTTAAGT
66 TGAATCAGCATATTGACACTTT-A--ATCTTTAAGA
* * * * * * *
2642953 CTAATGTCTC-GACCTTGAATTAGCACATTGGCATCTTCATCTTTAAGTCCGATATCGCTGGCCT
1 CCAATATCACTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCGATATCGTTGGCCT
* *
2643017 TGGATCAGCATATT-ATATCTTT-ATCTTTAAGA
66 TGAATCAGCATATTGACA-CTTTAATCTTTAAGA
*
2643049 CCAATATCACTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCTGATATCGTTGGCCT
1 CCAATATCACTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCGATATCGTTGGCCT
* *
2643114 TGAATCAGCATATTGGCATCTTTAA-CATTTCTAAGC
66 TGAATCAGCATATTGACA-CTTTAATC--TT-TAAGA
* * ** * * * ** * *
2643150 CCAATGTCGCTGGCCTTGTCTCAGCATATTGGCA--TTCTTCTTCAAGTCTAATGTCGTTGGCCA
1 CCAATATCACTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCGATATCGTTGGCCT
* *
2643213 TGAATCTGCACATTG
66 TGAATCAGCATATTG
2643228 TCATGCTTCG
Statistics
Matches: 226, Mismatches: 42, Indels: 16
0.80 0.15 0.06
Matches are distributed among these distances:
96 16 0.07
97 62 0.27
98 7 0.03
99 39 0.17
100 63 0.28
101 39 0.17
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.35
Consensus pattern (98 bp):
CCAATATCACTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCGATATCGTTGGCCT
TGAATCAGCATATTGACACTTTAATCTTTAAGA
Found at i:2643211 original size:148 final size:145
Alignment explanation
Indices: 2642848--2643227 Score: 379
Period size: 148 Copynumber: 2.6 Consensus size: 145
2642838 ACATTGGCAC
* * * *
2642848 AAGCCCAATATTGCTGGCTTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCGATGTCGTTG
1 AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCA--TTCTTCTTTAAGACCAATGTCGTTG
* * * *
2642913 GCCTTAAATCAGCACATTGGCACTTTAACCATCTTTAAGTCTAATGTCTCGACCTTGAATTAGCA
64 GCCTTGAATCAGCACATTGGCACCTT-A-CATCTTTAAGTCTAATATCTCGACCTTGAATCAGCA
2642978 CATTGGCATCTTCATCTTT
127 CATTGGCATCTTCATCTTT
* * * ** * * **
2642997 AAGTCCGATATCGCTGGCCTTGGATCAGCATATT-ATATCTTTATCTTTAAGACCAATATCACTG
1 AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCAT-TCT-TCTTTAAGACCAATGTCGTTG
* * * *
2643061 GCCTTGAATCAGCACATTGGCACCTT-CATCTTTAAGTCTGATATCGTTGGCCTTGAATCAGCAT
64 GCCTTGAATCAGCACATTGGCACCTTACATCTTTAAGTCTAATATC-TCGACCTTGAATCAGCAC
2643125 ATTGGCATCTTTAACAT-TTCT
128 ATTGGCATC-TT--CATCTT-T
* ** * * *
2643146 AAGCCCAATGTCGCTGGCCTTGTCTCAGCATATTGGCATTCTTCTTCAAGTCTAATGTCGTTGGC
1 AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCATTCTTCTTTAAGACCAATGTCGTTGGC
* *
2643211 CATGAATCTGCACATTG
66 CTTGAATCAGCACATTG
2643228 TCATGCTTCG
Statistics
Matches: 186, Mismatches: 37, Indels: 17
0.77 0.15 0.07
Matches are distributed among these distances:
145 17 0.09
146 24 0.13
147 3 0.02
148 76 0.41
149 64 0.34
150 2 0.01
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.34
Consensus pattern (145 bp):
AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCATTCTTCTTTAAGACCAATGTCGTTGGC
CTTGAATCAGCACATTGGCACCTTACATCTTTAAGTCTAATATCTCGACCTTGAATCAGCACATT
GGCATCTTCATCTTT
Found at i:2644071 original size:12 final size:14
Alignment explanation
Indices: 2644044--2644071 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
2644034 GTATCGATAC
2644044 ATTATTCAATATAT
1 ATTATTCAATATAT
2644058 ATTATTCAATATAT
1 ATTATTCAATATAT
2644072 CGATATATGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (14 bp):
ATTATTCAATATAT
Found at i:2648919 original size:233 final size:234
Alignment explanation
Indices: 2648567--2649048 Score: 510
Period size: 233 Copynumber: 2.1 Consensus size: 234
2648557 TCTTAAGGGT
* * * *
2648567 ATTTTAGTAATTTTACCTTCAAATCGAGTCTTTTAAGGTCACCAAGATACTTTTATGTCAATGTT
1 ATTTTAGTAATTTTACCTTCAAATCGAGTCCTTTAAAGTCACCAAGATACTTTTATGTCAAAGGT
* * * *
2648632 GTGCTTTAGAGATAGGTCTATCATTTCATACTACTATCAAGTCCTTTAGGATTACTAAGATATTT
66 ATACTTTAGAGATAGGTCTATCATTTCATACCACTATCAAGTCCTTTAGGATTACTAAGATACTT
** ** * ** * * * *
2648697 TCATGTTGAATGTGTGTTTTAGGGATAAGTTTATCATTTTATATCATTA-TCGAGT-CTTCTAGG
131 TCACATCAAAGGTGTACTTTAGGGATAAGCTTATCATTTCATATCAGTACT-GAATCCTT-TAGG
*
2648760 GTTACCAAAAAACTTTCATATCAAAAGTATAATTTATGGGGGC
194 GTTACCAAAAAACTTT-ATATCAAAAGTATAATTTA-GGAGGC
* * * *
2648803 ATTTTAGTAATTTTA-CTT-TAAT-GAGTCCTTTAAAGTTATCGAGATA-TTTTCATGTCAAAGG
1 ATTTTAGTAATTTTACCTTCAAATCGAGTCCTTTAAAGTCACCAAGATACTTTT-ATGTCAAAGG
* * * * * * *
2648864 TATACTTTA-AGGATAGGTCTATCATTTTATACCATTATTAGGTCTTTTGGGATTACTAGGATAC
65 TATACTTTAGA-GATAGGTCTATCATTTCATACCACTATCAAGTCCTTTAGGATTACTAAGATAC
* *
2648928 TTTCACATCAAAGGTTTACTTTAGGGATAGGCTTATCATTTCATATCAGTACTGAATCCTTTAGG
129 TTTCACATCAAAGGTGTACTTTAGGGATAAGCTTATCATTTCATATCAGTACTGAATCCTTTAGG
** * * **
2648993 GTTACTGAAATACTTTATGTCAAAAGTATGTTTTAGGAGGC
194 GTTACCAAAAAACTTTATATCAAAAGTATAATTTAGGAGGC
2649034 ATTTTAGTAATTTTA
1 ATTTTAGTAATTTTA
2649049 TCTTAAAACT
Statistics
Matches: 203, Mismatches: 39, Indels: 13
0.80 0.15 0.05
Matches are distributed among these distances:
231 20 0.10
232 21 0.10
233 137 0.67
234 7 0.03
235 3 0.01
236 15 0.07
ACGTcount: A:0.30, C:0.13, G:0.16, T:0.41
Consensus pattern (234 bp):
ATTTTAGTAATTTTACCTTCAAATCGAGTCCTTTAAAGTCACCAAGATACTTTTATGTCAAAGGT
ATACTTTAGAGATAGGTCTATCATTTCATACCACTATCAAGTCCTTTAGGATTACTAAGATACTT
TCACATCAAAGGTGTACTTTAGGGATAAGCTTATCATTTCATATCAGTACTGAATCCTTTAGGGT
TACCAAAAAACTTTATATCAAAAGTATAATTTAGGAGGC
Found at i:2654204 original size:21 final size:21
Alignment explanation
Indices: 2654178--2654226 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
2654168 ATAATCTAAA
2654178 TATATCTAATCGTATTTTTAT
1 TATATCTAATCGTATTTTTAT
* **
2654199 TATATCTTATTTTATTTTTAT
1 TATATCTAATCGTATTTTTAT
*
2654220 CATATCT
1 TATATCT
2654227 TTACGTGCTC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.27, C:0.10, G:0.02, T:0.61
Consensus pattern (21 bp):
TATATCTAATCGTATTTTTAT
Found at i:2655010 original size:16 final size:16
Alignment explanation
Indices: 2654991--2655021 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2654981 CTTTATTTTT
2654991 TAATAAAATTATAAAC
1 TAATAAAATTATAAAC
*
2655007 TAATAAAATTTTAAA
1 TAATAAAATTATAAA
2655022 AACAAAATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.35
Consensus pattern (16 bp):
TAATAAAATTATAAAC
Found at i:2655187 original size:32 final size:32
Alignment explanation
Indices: 2655121--2655197 Score: 86
Period size: 32 Copynumber: 2.4 Consensus size: 32
2655111 ATTCAAATTC
* * **
2655121 TTTT-GAGTTCGAGCTTATTCGGGTTTGATTT
1 TTTTCGAGTTCGAGCTTATTCAGGTTCGAACT
*
2655152 TTTTCGAGTTTGAGCTTATTCAGGTTCGAACT
1 TTTTCGAGTTCGAGCTTATTCAGGTTCGAACT
2655184 TTTTC-AGGTTCGAG
1 TTTTCGA-GTTCGAG
2655198 TCTTTTTGAG
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
31 5 0.13
32 33 0.87
ACGTcount: A:0.16, C:0.13, G:0.25, T:0.47
Consensus pattern (32 bp):
TTTTCGAGTTCGAGCTTATTCAGGTTCGAACT
Found at i:2655191 original size:16 final size:16
Alignment explanation
Indices: 2655170--2655218 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
2655160 TTTGAGCTTA
*
2655170 TTCAGGTTCGAACTTT
1 TTCAGGTTCGATCTTT
2655186 TTCAGGTTCGAGTCTTT
1 TTCAGGTTCGA-TCTTT
*
2655203 TTGA-GTTCGATCTTT
1 TTCAGGTTCGATCTTT
2655218 T
1 T
2655219 GCATGTTAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
15 6 0.20
16 17 0.57
17 7 0.23
ACGTcount: A:0.14, C:0.16, G:0.20, T:0.49
Consensus pattern (16 bp):
TTCAGGTTCGATCTTT
Found at i:2656415 original size:22 final size:22
Alignment explanation
Indices: 2656362--2656405 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
2656352 TAAAGCTCAT
2656362 GATATAATTTATTCTTTGATAA
1 GATATAATTTATTCTTTGATAA
2656384 GATATAATTTACTT-TTTGATAA
1 GATATAATTTA-TTCTTTGATAA
2656406 ATTATTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 19 0.90
23 2 0.10
ACGTcount: A:0.36, C:0.05, G:0.09, T:0.50
Consensus pattern (22 bp):
GATATAATTTATTCTTTGATAA
Found at i:2657755 original size:33 final size:31
Alignment explanation
Indices: 2657717--2657815 Score: 84
Period size: 27 Copynumber: 3.2 Consensus size: 31
2657707 ATATATTTTG
2657717 TTATATTTTAATCATATTTAAGATATTTAATAT
1 TTATA-TTTAAT-ATATTTAAGATATTTAATAT
*
2657750 TTATA--TAA-AT-TTTAATATA-TTAATAAT
1 TTATATTTAATATATTTAAGATATTTAAT-AT
*
2657777 TTATA-TTATATAAAATTTAAGATATTTATATAT
1 TTATATTTA-AT-ATATTTAAGATATTTA-ATAT
2657810 TTATAT
1 TTATAT
2657816 AATGTCATAT
Statistics
Matches: 54, Mismatches: 3, Indels: 17
0.73 0.04 0.23
Matches are distributed among these distances:
26 5 0.09
27 15 0.28
28 4 0.07
29 1 0.02
30 3 0.06
31 1 0.02
32 8 0.15
33 15 0.28
34 2 0.04
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (31 bp):
TTATATTTAATATATTTAAGATATTTAATAT
Found at i:2657763 original size:27 final size:27
Alignment explanation
Indices: 2657732--2657817 Score: 100
Period size: 32 Copynumber: 3.0 Consensus size: 27
2657722 TTTTAATCAT
2657732 ATTTAAGATATTTAATATTTATATAAA
1 ATTTAAGATATTTAATATTTATATAAA
* *
2657759 TTTTAATATATTAATAATTTATATTATATAAA
1 ATTTAAGATATT--TAA--TAT-TTATATAAA
2657791 ATTTAAGATATTTATATATTTATATAA
1 ATTTAAGATATTTA-ATATTTATATAA
2657818 TGTCATATTT
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
27 10 0.20
28 8 0.16
29 6 0.12
30 2 0.04
31 4 0.08
32 19 0.39
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (27 bp):
ATTTAAGATATTTAATATTTATATAAA
Found at i:2657765 original size:18 final size:18
Alignment explanation
Indices: 2657742--2657808 Score: 63
Period size: 18 Copynumber: 3.8 Consensus size: 18
2657732 ATTTAAGATA
2657742 TTTAATATTTATATAAAT
1 TTTAATATTTATATAAAT
2657760 TTTAATATATTA-AT-AA-
1 TTTAATAT-TTATATAAAT
2657776 TTT-ATA-TTATATAAAAT
1 TTTAATATTTATAT-AAAT
*
2657793 TTAAGATATTTATATA
1 TTTA-ATATTTATATA
2657809 TTTATATAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 15
0.71 0.02 0.27
Matches are distributed among these distances:
13 3 0.08
14 2 0.05
15 3 0.08
16 5 0.12
17 4 0.10
18 10 0.25
19 7 0.17
20 6 0.15
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.52
Consensus pattern (18 bp):
TTTAATATTTATATAAAT
Found at i:2659787 original size:14 final size:14
Alignment explanation
Indices: 2659768--2659800 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
2659758 ATCGGCGCAT
2659768 CCTCATGTGAACAA
1 CCTCATGTGAACAA
2659782 CCTCATGTGAACAA
1 CCTCATGTGAACAA
2659796 CCTCA
1 CCTCA
2659801 GCTTGAGCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.33, C:0.33, G:0.12, T:0.21
Consensus pattern (14 bp):
CCTCATGTGAACAA
Found at i:2660261 original size:21 final size:20
Alignment explanation
Indices: 2660237--2660293 Score: 53
Period size: 21 Copynumber: 2.8 Consensus size: 20
2660227 TTTTAAAGGT
2660237 TTTTATTTATAATTT-ATTAA
1 TTTTATTTAT-ATTTAATTAA
* *
2660257 CTTTTAGTTATTTTTAAATTAA
1 -TTTTATTTATATTT-AATTAA
*
2660279 TTTTATTTATTTTTA
1 TTTTATTTATATTTA
2660294 TAATAAAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 4 0.13
21 22 0.71
22 5 0.16
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (20 bp):
TTTTATTTATATTTAATTAA
Found at i:2660305 original size:21 final size:21
Alignment explanation
Indices: 2660264--2660305 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
2660254 TAACTTTTAG
**
2660264 TTATTTTTAAATTAATTTTAT
1 TTATTTTTAAATTAAAATTAT
2660285 TTATTTTTATAA-TAAAATTAT
1 TTATTTTTA-AATTAAAATTAT
2660306 ATAATAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TTATTTTTAAATTAAAATTAT
Found at i:2661452 original size:2 final size:2
Alignment explanation
Indices: 2661445--2661474 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2661435 ATTATGACTT
2661445 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2661475 AACCTTAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2662706 original size:20 final size:20
Alignment explanation
Indices: 2662677--2662746 Score: 86
Period size: 20 Copynumber: 3.5 Consensus size: 20
2662667 AATGTCCAAT
2662677 ATCAATACATTCACTTATGA
1 ATCAATACATTCACTTATGA
* *
2662697 ATCGATACATTCACTTATGT
1 ATCAATACATTCACTTATGA
* * *
2662717 ATTAATACATTCACTTGTTGT
1 ATCAATACATTCACTT-ATGA
2662738 ATCAATACA
1 ATCAATACA
2662747 AATTATAGAA
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
20 32 0.74
21 11 0.26
ACGTcount: A:0.36, C:0.19, G:0.07, T:0.39
Consensus pattern (20 bp):
ATCAATACATTCACTTATGA
Found at i:2663673 original size:51 final size:49
Alignment explanation
Indices: 2663541--2663688 Score: 161
Period size: 51 Copynumber: 2.9 Consensus size: 49
2663531 TGATAAGAAT
* * * * * *
2663541 GCCAATATGTTGATTCAAGGCCAGCGATATTGAACTTAAAAGTGATAAGGGG
1 GCCAATGTATTGATTCAAGGCCAGAGACATTAAACTT-AAA--GATGAGGGG
* *
2663593 GCCAATGTACTGATTCAAGGCCAGTGACATTAAACTTAAAGATGAGGAGG
1 GCCAATGTATTGATTCAAGGCCAGAGACATTAAACTTAAAGATGAGG-GG
* *
2663643 TGTCAATGTATTGATTCAAGGCCAGAGACATTAGACTTAAAGATGA
1 -GCCAATGTATTGATTCAAGGCCAGAGACATTAAACTTAAAGATGA
2663689 TAAAGATGTC
Statistics
Matches: 83, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
49 6 0.07
50 2 0.02
51 44 0.53
52 31 0.37
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (49 bp):
GCCAATGTATTGATTCAAGGCCAGAGACATTAAACTTAAAGATGAGGGG
Found at i:2663682 original size:103 final size:101
Alignment explanation
Indices: 2663550--2663827 Score: 294
Period size: 101 Copynumber: 2.7 Consensus size: 101
2663540 TGCCAATATG
* * * * * *
2663550 TTGATTCAAGGCCAGCGATATTGAACTTAAA-AGTGATAAGGGGGCCAATGTACTGATTCAAGGC
1 TTGATTCAAGGCCAGAGACATTG-ACTTAAAGA-TGATAAAGGTGCCAATGTGCTAATTCAAGGC
*
2663614 CAGTGACATTAA-ACTTAAAGATGAGGAGGTG-TCAATGTA
64 CAGCGACATTAAGACTTAAAGATGA-GA-GTGCT-AATGTA
* * *
2663653 TTGATTCAAGGCCAGAGACATTAGACTTAAAGATGATAAAGATGTCAATATGCTAATTCAAGGCC
1 TTGATTCAAGGCCAGAGACATT-GACTTAAAGATGATAAAGGTGCCAATGTGCTAATTCAAGGCC
* * *
2663718 AGCGATA-TAAGACTTAAAGATGATAGTGCTAATGTG
65 AGCGACATTAAGACTTAAAGATGAGAGTGCTAATGTA
* * * * * *
2663754 CTGATTTAAGACTAGTGACATTGGACTTAAAGATAATAAAGGTGCCAATGTGCTAATTCAAGGCC
1 TTGATTCAAGGCCAGAGACATT-GACTTAAAGATGATAAAGGTGCCAATGTGCTAATTCAAGGCC
2663819 AGCGACATT
65 AGCGACATT
2663828 GGGATTGGGA
Statistics
Matches: 146, Mismatches: 24, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
101 69 0.47
102 6 0.04
103 69 0.47
104 2 0.01
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.26
Consensus pattern (101 bp):
TTGATTCAAGGCCAGAGACATTGACTTAAAGATGATAAAGGTGCCAATGTGCTAATTCAAGGCCA
GCGACATTAAGACTTAAAGATGAGAGTGCTAATGTA
Found at i:2663829 original size:52 final size:52
Alignment explanation
Indices: 2663540--2663827 Score: 264
Period size: 52 Copynumber: 5.6 Consensus size: 52
2663530 ATGATAAGAA
* * * *
2663540 TGCCAATATGTTGATTCAAGGCCAGCGATATT-GAACTTAAA-AGTGATAAGGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTAG-ACTTAAAGA-TGATAAAGG
* * * * **
2663592 GGCCAATGTACTGATTCAAGGCCAGTGACATTAAACTTAAAGATGA-GGAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGATAAAGG
* ** * *
2663643 TGTCAATGTATTGATTCAAGGCCAGAGACATTAGACTTAAAGATGATAAAGA
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGATAAAGG
* * * * *
2663695 TGTCAATATGCTAATTCAAGGCCAGCGATATAAGACTTAAAGATGAT--A-G
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGATAAAGG
* * * * * * *
2663744 TGCTAATGTGCTGATTTAAGACTAGTGACATTGGACTTAAAGATAATAAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGATAAAGG
*
2663796 TGCCAATGTGCTAATTCAAGGCCAGCGACATT
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATT
2663828 GGGATTGGGA
Statistics
Matches: 186, Mismatches: 44, Indels: 12
0.77 0.18 0.05
Matches are distributed among these distances:
49 35 0.19
50 1 0.01
51 44 0.24
52 105 0.56
53 1 0.01
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.26
Consensus pattern (52 bp):
TGCCAATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGATAAAGG
Found at i:2663931 original size:58 final size:57
Alignment explanation
Indices: 2663795--2664003 Score: 224
Period size: 58 Copynumber: 3.6 Consensus size: 57
2663785 GATAATAAAG
* * **
2663795 GTGCCAATGTGCTAATTCAAGGCCAGCGACATTGGGA-TTGGGAGAAAGATTTGACAA
1 GTGCCAATGTGCTGATTCAAGGCCAACGACATTGGGATTTGAAAGAAAG-TTTGACAA
* *** * * *
2663852 GTGCTAATGCATTGATTTAAGGCCAATGACATTGGGATTTAGAAATAAAGTTTGACAA
1 GTGCCAATGTGCTGATTCAAGGCCAACGACATTGGGATTT-GAAAGAAAGTTTGACAA
* *
2663910 GTGCCAATGTGCTGGTTTAAGGCCAACGACATT-GGACTTTGAAAAGAAAGTTTGACAA
1 GTGCCAATGTGCTGATTCAAGGCCAACGACATTGGGA-TTTG-AAAGAAAGTTTGACAA
* * *
2663968 GTACCAATGTGTTGATTCAAGGCCAATGACATTGGG
1 GTGCCAATGTGCTGATTCAAGGCCAACGACATTGGG
2664004 GCTTAAAAGG
Statistics
Matches: 124, Mismatches: 23, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
57 33 0.27
58 83 0.67
59 8 0.06
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (57 bp):
GTGCCAATGTGCTGATTCAAGGCCAACGACATTGGGATTTGAAAGAAAGTTTGACAA
Found at i:2663993 original size:116 final size:115
Alignment explanation
Indices: 2663795--2664003 Score: 278
Period size: 116 Copynumber: 1.8 Consensus size: 115
2663785 GATAATAAAG
* ** * *
2663795 GTGCCAATGTGCTAATTCAAGGCCAGCGACATTGGGATTGGGAGAAAGATTTGACAAGTGCTAAT
1 GTGCCAATGTGCTAATTCAAGGCCAACGACATTGGGATTGAAAGAAAGATTTGACAAGTACCAAT
*
2663860 GCATTGATTTAAGGCCAATGACATTGGGATTTAGAAATAAAGTTTGACAA
66 GCATTGATTCAAGGCCAATGACATTGGGATTTAGAAATAAAGTTTGACAA
** *
2663910 GTGCCAATGTGCTGGTTTAAGGCCAACGACATT-GGACTTTGAAAAGAAAG-TTTGACAAGTACC
1 GTGCCAATGTGCTAATTCAAGGCCAACGACATTGGGA--TTG-AAAGAAAGATTTGACAAGTACC
**
2663973 AATGTGTTGATTCAAGGCCAATGACATTGGG
63 AATGCATTGATTCAAGGCCAATGACATTGGG
2664004 GCTTAAAAGG
Statistics
Matches: 80, Mismatches: 11, Indels: 5
0.83 0.11 0.05
Matches are distributed among these distances:
114 3 0.04
115 29 0.36
116 42 0.52
117 6 0.08
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (115 bp):
GTGCCAATGTGCTAATTCAAGGCCAACGACATTGGGATTGAAAGAAAGATTTGACAAGTACCAAT
GCATTGATTCAAGGCCAATGACATTGGGATTTAGAAATAAAGTTTGACAA
Found at i:2664134 original size:29 final size:29
Alignment explanation
Indices: 2664072--2664223 Score: 153
Period size: 29 Copynumber: 5.2 Consensus size: 29
2664062 GACTTGGAAA
* *
2664072 AAGGATGCCACT-AGCTCTGTGGACTTTGAT
1 AAGGGTGCCACTGAG-T-TGTGGACTTTGAG
* * *
2664102 AAGGGTGCCACTTAGTTTTGGTCTTTGAG
1 AAGGGTGCCACTGAGTTGTGGACTTTGAG
* * *
2664131 AAGGATGCCATTGAGTTGTGGACTTTAAG
1 AAGGGTGCCACTGAGTTGTGGACTTTGAG
2664160 AAGGGTGCCACTGAGTTGTGGACTTTGAG
1 AAGGGTGCCACTGAGTTGTGGACTTTGAG
* * * ** *
2664189 AAAGGTACCACTGAGTTATAAACTTTGAA
1 AAGGGTGCCACTGAGTTGTGGACTTTGAG
2664218 AAGGGT
1 AAGGGT
2664224 TGCTCCACGG
Statistics
Matches: 101, Mismatches: 20, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
29 87 0.86
30 12 0.12
31 2 0.02
ACGTcount: A:0.26, C:0.14, G:0.30, T:0.30
Consensus pattern (29 bp):
AAGGGTGCCACTGAGTTGTGGACTTTGAG
Found at i:2665744 original size:8 final size:8
Alignment explanation
Indices: 2665733--2665802 Score: 56
Period size: 9 Copynumber: 8.8 Consensus size: 8
2665723 ATTTTTTACC
2665733 TTTTTTAT
1 TTTTTTAT
*
2665741 TTTTTT-G
1 TTTTTTAT
*
2665748 TTTTTGA-
1 TTTTTTAT
2665755 -TTTTTAT
1 TTTTTTAT
2665762 TTTTTTAT
1 TTTTTTAT
*
2665770 TATTTTGAT
1 T-TTTTTAT
*
2665779 TTTTTGATT
1 TTTTTTA-T
2665788 TTTTTTACT
1 TTTTTTA-T
2665797 TTTTTT
1 TTTTTT
2665803 GAAATAGGAT
Statistics
Matches: 51, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
6 5 0.10
7 5 0.10
8 20 0.39
9 21 0.41
ACGTcount: A:0.11, C:0.01, G:0.06, T:0.81
Consensus pattern (8 bp):
TTTTTTAT
Found at i:2665758 original size:31 final size:31
Alignment explanation
Indices: 2665723--2665801 Score: 90
Period size: 29 Copynumber: 2.5 Consensus size: 31
2665713 TTTTTGGGAA
*
2665723 ATTTTTTACCTTTTTTATTTTTTTG-TTTTTG
1 ATTTTTTA-CTTTTTTATTATTTTGATTTTTG
*
2665754 A-TTTTTATTTTTTTATTATTTTGATTTTTTG
1 ATTTTTTACTTTTTTATTATTTTGA-TTTTTG
2665785 ATTTTTTTTACTTTTTT
1 A--TTTTTTACTTTTTT
2665802 TGAAATAGGA
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
29 14 0.35
30 6 0.15
31 8 0.20
34 12 0.30
ACGTcount: A:0.13, C:0.04, G:0.05, T:0.78
Consensus pattern (31 bp):
ATTTTTTACTTTTTTATTATTTTGATTTTTG
Found at i:2665780 original size:17 final size:17
Alignment explanation
Indices: 2665733--2665802 Score: 65
Period size: 17 Copynumber: 4.2 Consensus size: 17
2665723 ATTTTTTACC
*
2665733 TTTT-TTATTTTT-TTG
1 TTTTATTATTTTTATTT
*
2665748 TTTT-TGATTTTTATTT
1 TTTTATTATTTTTATTT
*
2665764 TTTTATTATTTTGATTT
1 TTTTATTATTTTTATTT
* *
2665781 TTTGATTTTTTTTACTTT
1 TTTTATTATTTTTA-TTT
2665799 TTTT
1 TTTT
2665803 GAAATAGGAT
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
15 11 0.25
16 6 0.14
17 21 0.48
18 6 0.14
ACGTcount: A:0.11, C:0.01, G:0.06, T:0.81
Consensus pattern (17 bp):
TTTTATTATTTTTATTT
Done.