Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold193
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: 3104049
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.32
Warning! 172765 characters in sequence are not A, C, G, or T
File 6 of 18
Found at i:946369 original size:34 final size:34
Alignment explanation
Indices: 946323--946476 Score: 158
Period size: 30 Copynumber: 4.6 Consensus size: 34
946313 TTTTCAAAGC
946323 CCACAACTCCGTGGCACTCTTTTTCCTTCTAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTCTAAGT
* * * *
946357 CCACGACTCCGTGGCAC-C---TTCTTTCAAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTCTAAGT
*
946387 CCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGT
1 CCACAACTCCGTGGCACTCTTTTT-CCTTCT-AAGT
* * * *
946423 CCACAACTTCATGGCA-TCTTGTTCCTTTTAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTCTAAGT
*
946456 CCACAACTTCGTGGCA-TCTTT
1 CCACAACTCCGTGGCACTCTTT
946477 CACCCTTTTT
Statistics
Matches: 100, Mismatches: 14, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
30 25 0.25
31 1 0.01
33 24 0.24
34 24 0.24
35 9 0.09
36 17 0.17
ACGTcount: A:0.19, C:0.34, G:0.13, T:0.34
Consensus pattern (34 bp):
CCACAACTCCGTGGCACTCTTTTTCCTTCTAAGT
Found at i:946384 original size:64 final size:65
Alignment explanation
Indices: 946304--946426 Score: 205
Period size: 64 Copynumber: 1.9 Consensus size: 65
946294 CCACAAGTCA
*
946304 GTGGCATCTTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTT-CCTTCT-AAGTCCACGACTCC
1 GTGGCACCTTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTCTAAAGTCCACGACTCC
*
946367 GTGGCACCTTCTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGTCCAC
1 GTGGCACCTT-TTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTCTAAAGTCCAC
946427 AACTTCATGG
Statistics
Matches: 55, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
63 9 0.16
64 33 0.60
65 5 0.09
66 8 0.15
ACGTcount: A:0.20, C:0.35, G:0.14, T:0.32
Consensus pattern (65 bp):
GTGGCACCTTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTCTAAAGTCCACGACTCC
Found at i:946461 original size:33 final size:35
Alignment explanation
Indices: 946377--946475 Score: 130
Period size: 33 Copynumber: 2.9 Consensus size: 35
946367 GTGGCACCTT
* * * *
946377 CTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCC
1 CTTTTAAAGTCCACAACTTCGTGGCA-TCTTGTTCC
*
946413 CTTTTAAAGTCCACAACTTCATGGCATCTTGTT-C
1 CTTTTAAAGTCCACAACTTCGTGGCATCTTGTTCC
946447 CTTTT-AAGTCCACAACTTCGTGGCATCTT
1 CTTTTAAAGTCCACAACTTCGTGGCATCTT
946476 TCACCCTTTT
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
33 23 0.40
34 6 0.11
35 6 0.11
36 22 0.39
ACGTcount: A:0.21, C:0.31, G:0.12, T:0.35
Consensus pattern (35 bp):
CTTTTAAAGTCCACAACTTCGTGGCATCTTGTTCC
Found at i:946515 original size:32 final size:32
Alignment explanation
Indices: 946478--946643 Score: 235
Period size: 32 Copynumber: 5.2 Consensus size: 32
946468 GGCATCTTTC
*
946478 ACCCTTTTTAAAGCCCACACAAGTCGGTGGCA
1 ACCCTTTCTAAAGCCCACACAAGTCGGTGGCA
* *
946510 ACCCTTCCTAAAGCCCACACAAGTTGGTGGCA
1 ACCCTTTCTAAAGCCCACACAAGTCGGTGGCA
**
946542 ACCCCCTC-AAAGCCCACACAAGTCGGTGGCA
1 ACCCTTTCTAAAGCCCACACAAGTCGGTGGCA
* *
946573 ACCCTCTCTAAAGCCCACACAAGTTGGTGGCA
1 ACCCTTTCTAAAGCCCACACAAGTCGGTGGCA
* *
946605 ACCATTCTCCAAAGCCCACACAAGTCGGTGGCA
1 ACCCTT-TCTAAAGCCCACACAAGTCGGTGGCA
946638 ACCCTT
1 ACCCTT
946644 CTAGGCCCAA
Statistics
Matches: 118, Mismatches: 14, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
31 29 0.25
32 60 0.51
33 29 0.25
ACGTcount: A:0.28, C:0.36, G:0.18, T:0.17
Consensus pattern (32 bp):
ACCCTTTCTAAAGCCCACACAAGTCGGTGGCA
Found at i:946565 original size:63 final size:66
Alignment explanation
Indices: 946487--946645 Score: 272
Period size: 63 Copynumber: 2.5 Consensus size: 66
946477 CACCCTTTTT
946487 AAAGCCCACACAAGTCGGTGGCAACCCTTC-CTAAAGCCCACACAAGTTGGTGGCAACC-CCCT-
1 AAAGCCCACACAAGTCGGTGGCAACCCTTCTCTAAAGCCCACACAAGTTGGTGGCAACCACCCTC
946549 C
66 C
**
946550 AAAGCCCACACAAGTCGGTGGCAACCC-TCTCTAAAGCCCACACAAGTTGGTGGCAACCATTCTC
1 AAAGCCCACACAAGTCGGTGGCAACCCTTCTCTAAAGCCCACACAAGTTGGTGGCAACCACCCTC
946614 C
66 C
946615 AAAGCCCACACAAGTCGGTGGCAACCCTTCT
1 AAAGCCCACACAAGTCGGTGGCAACCCTTCT
946646 AGGCCCAATA
Statistics
Matches: 90, Mismatches: 2, Indels: 5
0.93 0.02 0.05
Matches are distributed among these distances:
62 2 0.02
63 55 0.61
64 2 0.02
65 28 0.31
66 3 0.03
ACGTcount: A:0.29, C:0.36, G:0.19, T:0.16
Consensus pattern (66 bp):
AAAGCCCACACAAGTCGGTGGCAACCCTTCTCTAAAGCCCACACAAGTTGGTGGCAACCACCCTC
C
Found at i:947624 original size:13 final size:13
Alignment explanation
Indices: 947606--947630 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
947596 CATAAAGTGT
947606 TGTATCGATACAA
1 TGTATCGATACAA
947619 TGTATCGATACA
1 TGTATCGATACA
947631 TATTTTTTTT
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:947782 original size:52 final size:52
Alignment explanation
Indices: 947726--947854 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
947716 CACTGATCTT
* *
947726 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGAAGTATCGATACACTATAAAA
**
947778 TGTATCGATACATGCAGGCAAATTTGCCCAGAAGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGAAGTATCGATACACTATAAAA
947830 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
947855 TTATATTTCG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGAAGTATCGATACACTATAAAA
Found at i:951483 original size:50 final size:50
Alignment explanation
Indices: 951421--951571 Score: 230
Period size: 50 Copynumber: 3.0 Consensus size: 50
951411 ACGGTCGCTT
* *
951421 TCTCTATTGTCAAAGGTTGGTGAAGAATAGTCAACAATTATGACCACCTC
1 TCTCGATTGTCAAAGGTTGGTGAAGAATAGTCAACAATTACGACCACCTC
* *
951471 TCTCGATTGTCAAAGGTTAGTGAGGAATAGTCAACAATTACGACCACCTC
1 TCTCGATTGTCAAAGGTTGGTGAAGAATAGTCAACAATTACGACCACCTC
* * * *
951521 TCTTGATTGTTAAAGGTTGGTAAAGAATAGTCAAGAATTACGACCACCTC
1 TCTCGATTGTCAAAGGTTGGTGAAGAATAGTCAACAATTACGACCACCTC
951571 T
1 T
951572 TTTACACCCA
Statistics
Matches: 91, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 91 1.00
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.29
Consensus pattern (50 bp):
TCTCGATTGTCAAAGGTTGGTGAAGAATAGTCAACAATTACGACCACCTC
Found at i:951933 original size:13 final size:13
Alignment explanation
Indices: 951915--951939 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
951905 ATTTTGCTTA
951915 GTATCGATACATT
1 GTATCGATACATT
951928 GTATCGATACAT
1 GTATCGATACAT
951940 AAAACTAGCA
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:952054 original size:52 final size:52
Alignment explanation
Indices: 951976--952082 Score: 178
Period size: 52 Copynumber: 2.1 Consensus size: 52
951966 TTTCATTGTT
* *
951976 CATCACTATTCATCACTGTTCATGTATCGATACGTTGTGAATAGTATCAATA
1 CATCACTATTCATCAATGTTCATGTATCGATACATTGTGAATAGTATCAATA
* *
952028 CATCACTGTTCATCAATGTTCATGTATCGATACATTGTGAATAGTATCGATA
1 CATCACTATTCATCAATGTTCATGTATCGATACATTGTGAATAGTATCAATA
952080 CAT
1 CAT
952083 TGAGTCCAAC
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.36
Consensus pattern (52 bp):
CATCACTATTCATCAATGTTCATGTATCGATACATTGTGAATAGTATCAATA
Found at i:952165 original size:20 final size:21
Alignment explanation
Indices: 952119--952165 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
952109 AATTTCAAAT
*
952119 GCATGTATCGATACATTATGA
1 GCATGTATCGATACATTAGGA
952140 --ATTGTATCGATACA-TAGGA
1 GCA-TGTATCGATACATTAGGA
952159 GCATGTA
1 GCATGTA
952166 AGCACGGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 7
0.73 0.03 0.23
Matches are distributed among these distances:
19 5 0.23
20 16 0.73
21 1 0.05
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.32
Consensus pattern (21 bp):
GCATGTATCGATACATTAGGA
Found at i:953947 original size:21 final size:22
Alignment explanation
Indices: 953923--953983 Score: 67
Period size: 21 Copynumber: 2.9 Consensus size: 22
953913 GAATTAGAGG
953923 AGAAAATGAATGAGTTAG-AAA
1 AGAAAATGAATGAGTTAGCAAA
*
953944 AGAAAA-GAAAAGAGTT-GCAAA
1 AGAAAATG-AATGAGTTAGCAAA
953965 ATGAAAATG-ATGAGTTAGC
1 A-GAAAATGAATGAGTTAGC
953984 TAATAAAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
20 2 0.06
21 23 0.70
22 7 0.21
23 1 0.03
ACGTcount: A:0.54, C:0.03, G:0.25, T:0.18
Consensus pattern (22 bp):
AGAAAATGAATGAGTTAGCAAA
Found at i:956314 original size:28 final size:27
Alignment explanation
Indices: 956274--956330 Score: 96
Period size: 28 Copynumber: 2.1 Consensus size: 27
956264 TTTTATCAAC
*
956274 TTAGTTTTTAATAAAAAGGGGGGAGAGA
1 TTAGTTTTTAATAAAAA-GGGAGAGAGA
956302 TTAGTTTTTAATAAAAAGGGAGAGAGA
1 TTAGTTTTTAATAAAAAGGGAGAGAGA
956329 TT
1 TT
956331 TTTGTTAAGG
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
27 11 0.39
28 17 0.61
ACGTcount: A:0.40, C:0.00, G:0.28, T:0.32
Consensus pattern (27 bp):
TTAGTTTTTAATAAAAAGGGAGAGAGA
Found at i:956317 original size:27 final size:28
Alignment explanation
Indices: 956274--956330 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 28
956264 TTTTATCAAC
* *
956274 TTAGTTTTTAATAAAAAGGGGGGAGAGA
1 TTAGTTTTTAATAAAAAAGGGAGAGAGA
956302 TTAGTTTTTAAT-AAAAAGGGAGAGAGA
1 TTAGTTTTTAATAAAAAAGGGAGAGAGA
956329 TT
1 TT
956331 TTTGTTAAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 15 0.56
28 12 0.44
ACGTcount: A:0.40, C:0.00, G:0.28, T:0.32
Consensus pattern (28 bp):
TTAGTTTTTAATAAAAAAGGGAGAGAGA
Found at i:961777 original size:309 final size:309
Alignment explanation
Indices: 961218--961838 Score: 1215
Period size: 309 Copynumber: 2.0 Consensus size: 309
961208 TTATTACTTC
961218 ACTGTAGAGAGCTTCGTCATCATCAGAGGTACTTACAACACAACCCTGAGCTTTTGACAACTCAA
1 ACTGTAGAGAGCTTCGTCATCATCAGAGGTACTTACAACACAACCCTGAGCTTTTGACAACTCAA
961283 CTTTATTTTCTCCACTCTTTTATTTTTCCAATACTCTTTCTTAATGTGCCCTTTCTTACCACAGT
66 CTTTATTTTCTCCACTCTTTTATTTTTCCAATACTCTTTCTTAATGTGCCCTTTCTTACCACAGT
961348 TGTAGCACTTTATATTTTTCTTACTTCGAGATTTTGACCTACCTTGATTATGACTCTCATTTTGG
131 TGTAGCACTTTATATTTTTCTTACTTCGAGATTTTGACCTACCTTGATTATGACTCTCATTTTGG
*
961413 CCACGTTTCGTTGATCTTCCTTTCATCATCGATAACGCTTTCGCCTATTGTGAATTTGCCTGTCT
196 CCACGTTTCATTGATCTTCCTTTCATCATCGATAACGCTTTCGCCTATTGTGAATTTGCCTGTCT
961478 ATCTTTTTTATTTTTTCGCTTGCTTTCTTCATTTAGAATAGAGGTTGCA
261 ATCTTTTTTATTTTTTCGCTTGCTTTCTTCATTTAGAATAGAGGTTGCA
961527 ACTGTAGAGAGCTTCGTCATCATCAGAGGTACTTACAACACAACCCTGAGCTTTTGACAACTCAA
1 ACTGTAGAGAGCTTCGTCATCATCAGAGGTACTTACAACACAACCCTGAGCTTTTGACAACTCAA
*
961592 CTTTATTTTCTCCACTCTTTTATTTTTCCAATACTCTTTGTTAATGTGCCCTTTCTTACCACAGT
66 CTTTATTTTCTCCACTCTTTTATTTTTCCAATACTCTTTCTTAATGTGCCCTTTCTTACCACAGT
961657 TGTAGCACTTTATATTTTTCTTACTTCGAGATTTTGACCTACCTTGATTATGACTCTCATTTTGG
131 TGTAGCACTTTATATTTTTCTTACTTCGAGATTTTGACCTACCTTGATTATGACTCTCATTTTGG
*
961722 CCACGTTTCATTGATCTTCCTTTCATCATCGATAACGCTTTCGCCTATTGTGAATTTGTCTGTCT
196 CCACGTTTCATTGATCTTCCTTTCATCATCGATAACGCTTTCGCCTATTGTGAATTTGCCTGTCT
961787 ATCTTTTTTATTTTTTCGCTTGCTTTCTTCATTTAGAATAGAGGTTGCA
261 ATCTTTTTTATTTTTTCGCTTGCTTTCTTCATTTAGAATAGAGGTTGCA
961836 ACT
1 ACT
961839 TCATCGAAGA
Statistics
Matches: 309, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
309 309 1.00
ACGTcount: A:0.21, C:0.23, G:0.13, T:0.43
Consensus pattern (309 bp):
ACTGTAGAGAGCTTCGTCATCATCAGAGGTACTTACAACACAACCCTGAGCTTTTGACAACTCAA
CTTTATTTTCTCCACTCTTTTATTTTTCCAATACTCTTTCTTAATGTGCCCTTTCTTACCACAGT
TGTAGCACTTTATATTTTTCTTACTTCGAGATTTTGACCTACCTTGATTATGACTCTCATTTTGG
CCACGTTTCATTGATCTTCCTTTCATCATCGATAACGCTTTCGCCTATTGTGAATTTGCCTGTCT
ATCTTTTTTATTTTTTCGCTTGCTTTCTTCATTTAGAATAGAGGTTGCA
Found at i:962703 original size:50 final size:50
Alignment explanation
Indices: 962649--962788 Score: 235
Period size: 50 Copynumber: 2.8 Consensus size: 50
962639 GAATGAAGAT
* *
962649 AAAGGTTGGTGAAGTATAGTCAACAATTACGACCACCTCTCTCGATTATC
1 AAAGGTTGGTGAAGAATAGTCAACAATTACGACCACCTCTCTCAATTATC
* *
962699 AAAGGTTGGTGAGGAATAGTCAACAATTACGACCACCTCTCTCAATTGTC
1 AAAGGTTGGTGAAGAATAGTCAACAATTACGACCACCTCTCTCAATTATC
*
962749 AAAGGTTAGTGAAGAATAGTCAACAATTACGACCACCTCT
1 AAAGGTTGGTGAAGAATAGTCAACAATTACGACCACCTCT
962789 TTTGCACCTA
Statistics
Matches: 84, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 84 1.00
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (50 bp):
AAAGGTTGGTGAAGAATAGTCAACAATTACGACCACCTCTCTCAATTATC
Found at i:969726 original size:26 final size:26
Alignment explanation
Indices: 969697--969750 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
969687 TTAAGGTTTC
* *
969697 AATTTTATT-TTTAAGTTTCACAAAAT
1 AATTTAATTATTT-AGTTTCAAAAAAT
*
969723 AATTTAATTATTTATTTTCAAAAAAT
1 AATTTAATTATTTAGTTTCAAAAAAT
969749 AA
1 AA
969751 ATATTTTTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 21 0.88
27 3 0.12
ACGTcount: A:0.44, C:0.06, G:0.02, T:0.48
Consensus pattern (26 bp):
AATTTAATTATTTAGTTTCAAAAAAT
Found at i:969972 original size:27 final size:27
Alignment explanation
Indices: 969942--969993 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
969932 CCAAGATTGC
*
969942 AGTAGACCACGATTACGAGAATCAAGG
1 AGTAGAACACGATTACGAGAATCAAGG
*
969969 AGTAGAACATGATTACGAGAATCAA
1 AGTAGAACACGATTACGAGAATCAA
969994 TAATTAGCGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.44, C:0.15, G:0.23, T:0.17
Consensus pattern (27 bp):
AGTAGAACACGATTACGAGAATCAAGG
Found at i:971730 original size:19 final size:19
Alignment explanation
Indices: 971706--971768 Score: 84
Period size: 19 Copynumber: 3.6 Consensus size: 19
971696 AAACAGAAAA
971706 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAGTTT
971725 TGTATCGATAC--AA----
1 TGTATCGATACATAAGTTT
971738 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAGTTT
971757 TGTATCGATACA
1 TGTATCGATACA
971769 ATGTATCGCT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
15 2 0.05
17 2 0.05
19 23 0.61
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.38
Consensus pattern (19 bp):
TGTATCGATACATAAGTTT
Found at i:971743 original size:13 final size:13
Alignment explanation
Indices: 971725--971749 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
971715 ACATAAGTTT
971725 TGTATCGATACAA
1 TGTATCGATACAA
971738 TGTATCGATACA
1 TGTATCGATACA
971750 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:971745 original size:32 final size:32
Alignment explanation
Indices: 971704--971776 Score: 146
Period size: 32 Copynumber: 2.3 Consensus size: 32
971694 ACAAACAGAA
971704 AATGTATCGATACATAAGTTTTGTATCGATAC
1 AATGTATCGATACATAAGTTTTGTATCGATAC
971736 AATGTATCGATACATAAGTTTTGTATCGATAC
1 AATGTATCGATACATAAGTTTTGTATCGATAC
971768 AATGTATCG
1 AATGTATCG
971777 CTACGAAGCT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.37
Consensus pattern (32 bp):
AATGTATCGATACATAAGTTTTGTATCGATAC
Found at i:971819 original size:21 final size:21
Alignment explanation
Indices: 971793--971834 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
971783 AGCTACTGCC
971793 AAGGAAATGTATCGATACATT
1 AAGGAAATGTATCGATACATT
971814 AAGGAAATGTATCGATACATT
1 AAGGAAATGTATCGATACATT
971835 GTATCGATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.10, G:0.19, T:0.29
Consensus pattern (21 bp):
AAGGAAATGTATCGATACATT
Found at i:971839 original size:13 final size:13
Alignment explanation
Indices: 971821--971846 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
971811 ATTAAGGAAA
971821 TGTATCGATACAT
1 TGTATCGATACAT
971834 TGTATCGATACAT
1 TGTATCGATACAT
971847 CGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:974274 original size:52 final size:52
Alignment explanation
Indices: 974217--974338 Score: 156
Period size: 52 Copynumber: 2.3 Consensus size: 52
974207 ATTGTTCATT
* * * **
974217 ATCGGGGATACTCCAACCCCGGTTTTATTTTC-AAAACACTAATTTTCCTTTA
1 ATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACACAAATTTTCC-ACA
* *
974269 ATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACAAATTTTTCACA
1 ATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACACAAATTTTCCACA
*
974321 ATCGAGGATACTCCAACC
1 ATCGGGGATACTCCAACC
974339 TCGTTATTTC
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
52 46 0.77
53 14 0.23
ACGTcount: A:0.31, C:0.26, G:0.11, T:0.31
Consensus pattern (52 bp):
ATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACACAAATTTTCCACA
Found at i:974592 original size:79 final size:79
Alignment explanation
Indices: 974353--974608 Score: 307
Period size: 79 Copynumber: 3.2 Consensus size: 79
974343 TATTTCATCA
* ** * * *
974353 GGGATACTCCAACCCCATTACCTCCGAGGGAATACTCTAACCCCGACTTTATTCCCAAAATATTG
1 GGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATTTCCAAAATATTG
* **
974418 ATTTCTCATAATTA
66 ATTTCTCACAATCG
* * * * *
974432 GGAATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAATCCCGATTTTATTTCC-TAATCATC
1 GGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATTTCCAAAAT-ATT
* *
974496 GATTTTTCACAACCG
65 GATTTCTCACAATCG
* * *
974511 GGGATACTCCAACCCCGTTATTTTCTAGGGGATACTCCAACCCCGGCTTTATTTCCAAAATATTG
1 GGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATTTCCAAAATATTG
974576 ATTTCTCACAATCG
66 ATTTCTCACAATCG
* *
974590 GGGATACTTCAGCCCCGTT
1 GGGATACTCCAACCCCGTT
974609 GTTATCTCCA
Statistics
Matches: 147, Mismatches: 28, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
78 3 0.02
79 141 0.96
80 3 0.02
ACGTcount: A:0.26, C:0.29, G:0.14, T:0.30
Consensus pattern (79 bp):
GGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATTTCCAAAATATTG
ATTTCTCACAATCG
Found at i:979757 original size:14 final size:15
Alignment explanation
Indices: 979738--979766 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
979728 ATTTATTTTT
979738 AATTTTAA-ATATAA
1 AATTTTAATATATAA
979752 AATTTTAATATATAA
1 AATTTTAATATATAA
979767 TTATTATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
AATTTTAATATATAA
Found at i:980101 original size:24 final size:23
Alignment explanation
Indices: 980057--980102 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
980047 TTTCTACATG
*
980057 TTAATTATTAGTTTATCTATGTT
1 TTAATTATTAGTATATCTATGTT
* *
980080 TTAATATATTCGTATATTTATGT
1 TTAAT-TATTAGTATATCTATGT
980103 CATATTCATG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.28, C:0.04, G:0.09, T:0.59
Consensus pattern (23 bp):
TTAATTATTAGTATATCTATGTT
Found at i:980371 original size:16 final size:17
Alignment explanation
Indices: 980344--980384 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
980334 ATTTTTAAAT
980344 AAATTTTA-TTAATT-A
1 AAATTTTATTTAATTAA
*
980359 TAATTTTATTTAATTAA
1 AAATTTTATTTAATTAA
980376 AAATTTTAT
1 AAATTTTAT
980385 AAATATTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 7 0.32
16 6 0.27
17 9 0.41
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
AAATTTTATTTAATTAA
Found at i:980996 original size:5 final size:5
Alignment explanation
Indices: 980982--981018 Score: 67
Period size: 5 Copynumber: 7.6 Consensus size: 5
980972 CAATACCCTG
980982 ATTTT A-TTT ATTTT ATTTT ATTTT ATTTT ATTTT ATT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATT
981019 AAATTTATTG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 4 0.13
5 27 0.87
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (5 bp):
ATTTT
Found at i:982428 original size:14 final size:14
Alignment explanation
Indices: 982381--982430 Score: 57
Period size: 15 Copynumber: 3.5 Consensus size: 14
982371 AGGCACATTC
*
982381 ATTTTTTATAA-TT
1 ATTTTTTAAAATTT
*
982394 ATTTTTTAAAAATAT
1 ATTTTTT-AAAATTT
982409 ATTTTTTAAAATTT
1 ATTTTTTAAAATTT
982423 AATTTTTT
1 -ATTTTTT
982431 GTAATTTAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
13 7 0.23
14 9 0.29
15 15 0.48
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
ATTTTTTAAAATTT
Found at i:983293 original size:6 final size:6
Alignment explanation
Indices: 983278--983313 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
983268 ATATCAAATA
* *
983278 TTTCTT TTTCTC TTTCTT TTTCTT TTTCAT TTTCTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT
983314 GGCATTGATA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.03, C:0.19, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTCTT
Found at i:983406 original size:24 final size:23
Alignment explanation
Indices: 983362--983407 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
983352 AAATTTATTA
*
983362 TATTATTTTATATGAAAAATAAT
1 TATTATTATATATGAAAAATAAT
983385 TATTATATATATAT-AAATAATAA
1 TATTAT-TATATATGAAA-AATAA
983408 AAAATTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (23 bp):
TATTATTATATATGAAAAATAAT
Found at i:983437 original size:28 final size:27
Alignment explanation
Indices: 983351--983437 Score: 77
Period size: 28 Copynumber: 3.1 Consensus size: 27
983341 GTCTTCCATG
* * *
983351 AAAATTTATTATATTATTTTATATGAAA
1 AAAAATTATTATTTTATTTTAAAT-AAA
* * *
983379 AATAATTATTA-TATATATATAAATAATA
1 AAAAATTATTATTTTAT-TTTAAATAA-A
983407 AAAAATTATTTATTTTATTTTAAATAAA
1 AAAAATTA-TTATTTTATTTTAAATAAA
983435 AAA
1 AAA
983438 TTGTAACATA
Statistics
Matches: 46, Mismatches: 9, Indels: 8
0.73 0.14 0.13
Matches are distributed among these distances:
27 5 0.11
28 26 0.57
29 11 0.24
30 4 0.09
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (27 bp):
AAAAATTATTATTTTATTTTAAATAAA
Found at i:983649 original size:3 final size:3
Alignment explanation
Indices: 983594--983632 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
983584 TATATTAGTT
*
983594 ATA ATA ATA AGA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
983633 CGTTAAATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:984305 original size:11 final size:11
Alignment explanation
Indices: 984279--984316 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
984269 CATTTAAAAT
984279 TATAAATTTTA
1 TATAAATTTTA
*
984290 CATAATATTTT-
1 TATAA-ATTTTA
984301 TATAAATTTTA
1 TATAAATTTTA
984312 TATAA
1 TATAA
984317 TTTAAAATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
10 5 0.22
11 13 0.57
12 5 0.22
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (11 bp):
TATAAATTTTA
Found at i:984704 original size:40 final size:39
Alignment explanation
Indices: 984625--984705 Score: 108
Period size: 40 Copynumber: 2.1 Consensus size: 39
984615 GTGTGAATAT
* *
984625 AATAAAATAATAATAGATATTATATAATTTGATTAATTA
1 AATAAAATAAAAATAGATATTATATAATTTAATTAATTA
* * *
984664 AATAAAATAAAAATTATATATTATATTATTTAATTGATTA
1 AATAAAATAAAAA-TAGATATTATATAATTTAATTAATTA
984704 AA
1 AA
984706 ATTACATTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
39 12 0.33
40 24 0.67
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (39 bp):
AATAAAATAAAAATAGATATTATATAATTTAATTAATTA
Found at i:984861 original size:13 final size:13
Alignment explanation
Indices: 984838--984869 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
984828 AAAATATTCA
984838 ATTAT-TTAAAAT
1 ATTATATTAAAAT
984850 ATTATATTAAAAT
1 ATTATATTAAAAT
984863 A-TATATT
1 ATTATATT
984870 CCTTAATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
ATTATATTAAAAT
Found at i:985541 original size:22 final size:20
Alignment explanation
Indices: 985516--985566 Score: 59
Period size: 22 Copynumber: 2.5 Consensus size: 20
985506 CTGTAGTGTT
985516 TTTTTTTTTAATTTTAT-GTC
1 TTTTTTTTTAA-TTTATGGTC
*
985536 GATTTTTATTTAATTTATGGTC
1 --TTTTTTTTTAATTTATGGTC
985558 TTTTTTTTT
1 TTTTTTTTT
985567 GTTTTTCATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 8 0.31
21 5 0.19
22 13 0.50
ACGTcount: A:0.16, C:0.04, G:0.08, T:0.73
Consensus pattern (20 bp):
TTTTTTTTTAATTTATGGTC
Found at i:985786 original size:14 final size:14
Alignment explanation
Indices: 985767--985798 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
985757 TGATTATTTT
985767 ATTGAACAAAATAC
1 ATTGAACAAAATAC
985781 ATTGAACAAAATAC
1 ATTGAACAAAATAC
985795 ATTG
1 ATTG
985799 TAAATAGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.53, C:0.12, G:0.09, T:0.25
Consensus pattern (14 bp):
ATTGAACAAAATAC
Found at i:988625 original size:21 final size:19
Alignment explanation
Indices: 988585--988627 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 19
988575 GAAAATAAAT
*
988585 TTTAATTTTTTATTATTTA
1 TTTAATTTTTTATTACTTA
988604 TTTAATTTATTATATTACTTA
1 TTTAATTT-TT-TATTACTTA
988625 TTT
1 TTT
988628 TTAATATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 8 0.38
20 2 0.10
21 11 0.52
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (19 bp):
TTTAATTTTTTATTACTTA
Found at i:988765 original size:2 final size:2
Alignment explanation
Indices: 988758--988799 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
988748 AAAATACAAA
988758 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
988800 TGTTGATGCA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:991079 original size:13 final size:13
Alignment explanation
Indices: 991063--991087 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
991053 TGTAATTTCA
991063 AATTTTTTAATTG
1 AATTTTTTAATTG
991076 AATTTTTTAATT
1 AATTTTTTAATT
991088 TTTATATTTA
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:0.00, G:0.04, T:0.64
Consensus pattern (13 bp):
AATTTTTTAATTG
Found at i:994556 original size:13 final size:13
Alignment explanation
Indices: 994538--994562 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
994528 ATCAAATGCT
994538 TTCTTTTTTTTTC
1 TTCTTTTTTTTTC
994551 TTCTTTTTTTTT
1 TTCTTTTTTTTT
994563 TAATTTACTT
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:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (13 bp):
TTCTTTTTTTTTC
Found at i:995150 original size:12 final size:12
Alignment explanation
Indices: 995133--995162 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
995123 ATATTTTAAA
995133 TTTTAATAATTT
1 TTTTAATAATTT
995145 TTTTAATAATTT
1 TTTTAATAATTT
995157 TTTTAA
1 TTTTAA
995163 ATTATTATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
TTTTAATAATTT
Found at i:996152 original size:13 final size:13
Alignment explanation
Indices: 996134--996158 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
996124 ACAAAAATTT
996134 TTAAAAATTATTA
1 TTAAAAATTATTA
996147 TTAAAAATTATT
1 TTAAAAATTATT
996159 TGATATATAT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TTAAAAATTATTA
Found at i:997192 original size:16 final size:15
Alignment explanation
Indices: 997163--997216 Score: 58
Period size: 14 Copynumber: 3.7 Consensus size: 15
997153 AAATTAATTA
*
997163 AAAT-TATTAAATAT
1 AAATATATTATATAT
*
997177 GAATATAATTATATAT
1 AAATAT-ATTATATAT
997193 AAATATATTATAT-T
1 AAATATATTATATAT
*
997207 AATTATATTA
1 AAATATATTA
997217 AAATTTATTA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
14 13 0.38
15 8 0.24
16 13 0.38
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (15 bp):
AAATATATTATATAT
Found at i:997209 original size:24 final size:24
Alignment explanation
Indices: 997182--997259 Score: 67
Period size: 24 Copynumber: 3.4 Consensus size: 24
997172 AATATGAATA
997182 TAATTATATATAAATATATTATAT
1 TAATTATATATAAATATATTATAT
997206 TAATTATAT-TAAA-AT-TTATTAT
1 TAATTATATATAAATATATTA-TAT
* **
997228 TTA-TATATTATTTATATATT-TAT
1 TAATTATA-TATAAATATATTATAT
*
997251 TAAATATAT
1 TAATTATAT
997260 CATATTTGTA
Statistics
Matches: 44, Mismatches: 4, Indels: 13
0.72 0.07 0.21
Matches are distributed among these distances:
21 7 0.16
22 8 0.18
23 12 0.27
24 15 0.34
25 2 0.05
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (24 bp):
TAATTATATATAAATATATTATAT
Found at i:997236 original size:11 final size:11
Alignment explanation
Indices: 997222--997247 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
997212 TATTAAAATT
997222 TATTATTTATA
1 TATTATTTATA
997233 TATTATTTATA
1 TATTATTTATA
997244 TATT
1 TATT
997248 TATTAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TATTATTTATA
Found at i:1004836 original size:17 final size:17
Alignment explanation
Indices: 1004802--1004854 Score: 54
Period size: 17 Copynumber: 2.9 Consensus size: 17
1004792 ATTTCATATT
*
1004802 TTTTTCTCTT-TTTTTTC
1 TTTTTCT-TTCTTTCTTC
1004819 TTTTTCTTTCTTTCTTC
1 TTTTTCTTTCTTTCTTC
1004836 TTCATCTTCTTTCTTTCTT
1 TT--T-TTCTTTCTTTCTT
1004855 TCTTACCTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
16 2 0.06
17 15 0.48
19 1 0.03
20 13 0.42
ACGTcount: A:0.02, C:0.23, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTTTCTTTCTTTCTTC
Found at i:1006402 original size:19 final size:19
Alignment explanation
Indices: 1006378--1006451 Score: 76
Period size: 19 Copynumber: 3.6 Consensus size: 19
1006368 ACATTTATTT
1006378 GTATAAAACCATCCATATA
1 GTATAAAACCATCCATATA
1006397 GTATAAAACCATCCATTATAAA
1 GTATAAAACCATCCA-TAT--A
* *
1006419 ATCAATGACAACCATCCATATA
1 GT--AT-AAAACCATCCATATA
1006441 GTATAAAACCA
1 GTATAAAACCA
1006452 AAACCTTACA
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
19 21 0.47
20 5 0.11
22 4 0.09
24 5 0.11
25 10 0.22
ACGTcount: A:0.49, C:0.22, G:0.05, T:0.24
Consensus pattern (19 bp):
GTATAAAACCATCCATATA
Found at i:1015067 original size:12 final size:13
Alignment explanation
Indices: 1015045--1015074 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
1015035 CTATCTTATC
1015045 TAATATAATTAAT
1 TAATATAATTAAT
1015058 TAAT-TAATTAAT
1 TAATATAATTAAT
1015070 TAATA
1 TAATA
1015075 ACCAAAGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
TAATATAATTAAT
Found at i:1015393 original size:30 final size:28
Alignment explanation
Indices: 1015359--1015427 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 28
1015349 ATCATATTAA
1015359 TTATT-TTAATTATATTATATATTTTTATAT
1 TTATTATTAA-TATATT-TATA-TTTTATAT
1015389 TTATTAAATTAATATATTTATATTTTATATT
1 TTATT--ATTAATATATTTATATTTTATA-T
1015420 TTATTATT
1 TTATTATT
1015428 TTTAAAATTA
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
29 3 0.09
30 12 0.34
31 10 0.29
32 6 0.17
33 4 0.11
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (28 bp):
TTATTATTAATATATTTATATTTTATAT
Found at i:1015399 original size:38 final size:38
Alignment explanation
Indices: 1015353--1015438 Score: 97
Period size: 38 Copynumber: 2.3 Consensus size: 38
1015343 GTATATATCA
*
1015353 TATT-AATTATTTTAATTATATTATATATTTT-TATATT
1 TATTAAATTATTATAATTATATTATATATTTTAT-TATT
* * *
1015390 TATTAAATTAATATATTTATATTTTATATTTTATTATT
1 TATTAAATTATTATAATTATATTATATATTTTATTATT
1015428 T-TTAAAATTAT
1 TATT-AAATTAT
1015439 CAATATTAAC
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
37 6 0.15
38 34 0.83
39 1 0.02
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (38 bp):
TATTAAATTATTATAATTATATTATATATTTTATTATT
Found at i:1015426 original size:17 final size:17
Alignment explanation
Indices: 1015368--1015431 Score: 52
Period size: 15 Copynumber: 4.2 Consensus size: 17
1015358 ATTATTTTAA
1015368 TTATATTATA-TAT-TT
1 TTATATTATATTATATT
*
1015383 TTATATT-TATTA-AAT
1 TTATATTATATTATATT
*
1015398 TAATA-TAT-TTATATT
1 TTATATTATATTATATT
*
1015413 TTATATTTTATTAT-TT
1 TTATATTATATTATATT
1015429 TTA
1 TTA
1015432 AAATTATCAA
Statistics
Matches: 38, Mismatches: 5, Indels: 11
0.70 0.09 0.20
Matches are distributed among these distances:
14 6 0.16
15 21 0.55
16 7 0.18
17 4 0.11
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TTATATTATATTATATT
Found at i:1161846 original size:13 final size:13
Alignment explanation
Indices: 1161828--1161853 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1161818 TACACAAAGT
1161828 ATGTATCGATACA
1 ATGTATCGATACA
1161841 ATGTATCGATACA
1 ATGTATCGATACA
1161854 CAAAAAATTG
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:1161852 original size:32 final size:33
Alignment explanation
Indices: 1161811--1161873 Score: 101
Period size: 32 Copynumber: 1.9 Consensus size: 33
1161801 GTAGCCAAAC
**
1161811 GTATCGATACACAAAGTA-TGTATCGATACAAT
1 GTATCGATACACAAAAAATTGTATCGATACAAT
1161843 GTATCGATACACAAAAAATTGTATCGATACA
1 GTATCGATACACAAAAAATTGTATCGATACA
1161874 TTGGCTGTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.27
Consensus pattern (33 bp):
GTATCGATACACAAAAAATTGTATCGATACAAT
Found at i:1163992 original size:23 final size:24
Alignment explanation
Indices: 1163948--1163995 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 24
1163938 ACTATCAATT
*
1163948 AATTAAATTATTAATTATATATAA
1 AATTAAATTATTAATCATATATAA
1163972 AATT-AATTATTAAATCA-ATATAA
1 AATTAAATTATT-AATCATATATAA
1163995 A
1 A
1163996 TCAATTAATG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (24 bp):
AATTAAATTATTAATCATATATAA
Found at i:1164717 original size:5 final size:5
Alignment explanation
Indices: 1164707--1164738 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
1164697 TTCACCTTCA
*
1164707 GCTTT GCTTT GCTTT GCTTT GCTTT CCTTT GC
1 GCTTT GCTTT GCTTT GCTTT GCTTT GCTTT GC
1164739 ATGCTTTACA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.00, C:0.25, G:0.19, T:0.56
Consensus pattern (5 bp):
GCTTT
Found at i:1165110 original size:2 final size:2
Alignment explanation
Indices: 1165097--1165133 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
1165087 TGTAAGCTTT
* *
1165097 TC TC TT TC TC TC TC TT TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1165134 ATATATATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.43, G:0.00, T:0.57
Consensus pattern (2 bp):
TC
Found at i:1165138 original size:2 final size:2
Alignment explanation
Indices: 1165133--1165193 Score: 77
Period size: 2 Copynumber: 30.5 Consensus size: 2
1165123 TCTCTCTCTC
* * * * *
1165133 TA TA TA TA TA TA TA TA TA TA TA TC CA TC TA TG TA TG TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1165175 TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
1165194 TTGTACATCT
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.43, C:0.05, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:1166217 original size:18 final size:18
Alignment explanation
Indices: 1166178--1166219 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
1166168 AAAACTAATT
*
1166178 AATTTTATATGTATTTAT
1 AATTTTATATGTATTTAA
*
1166196 AATTTTATATAT-TATTAA
1 AATTTTATATGTAT-TTAA
1166214 AATTTT
1 AATTTT
1166220 GATAAATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 1 0.05
18 20 0.95
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (18 bp):
AATTTTATATGTATTTAA
Found at i:1176802 original size:32 final size:29
Alignment explanation
Indices: 1176754--1176830 Score: 109
Period size: 32 Copynumber: 2.5 Consensus size: 29
1176744 ATCATGTTTA
*
1176754 AAATATTTATATTTATATAAATTTTAAAAT
1 AAATATTTATA-TTATAAAAATTTTAAAAT
1176784 ATTAATAATTTATATTATAAAAATTTTAAAAT
1 A--AAT-ATTTATATTATAAAAATTTTAAAAT
1176816 AAATATTTATATTAT
1 AAATATTTATATTAT
1176831 TATTAGTTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
29 11 0.26
30 4 0.09
32 21 0.49
33 7 0.16
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (29 bp):
AAATATTTATATTATAAAAATTTTAAAAT
Found at i:1188059 original size:73 final size:74
Alignment explanation
Indices: 1187926--1188072 Score: 242
Period size: 73 Copynumber: 2.0 Consensus size: 74
1187916 AATTTGGACT
*
1187926 AAAATTTTGAAAAAGAAAAAACCAATGAAGGGGAATATAATTCGAACTCATCCTCTCTTCTATTT
1 AAAATTTTGAAAAAGAAAAAACCAATGAA-GGGAATATAATTCGAACTCATCCTCCCTTCTATTT
1187991 TCCTCTGAAA
65 TCCTCTGAAA
* *
1188001 AAAATTTTGAAAAAGAAAACACCAATGAA-GGAATATAATTCGAATTCATCCTCCCTTCTATTTT
1 AAAATTTTGAAAAAGAAAAAACCAATGAAGGGAATATAATTCGAACTCATCCTCCCTTCTATTTT
*
1188065 TCTCTGAA
66 CCTCTGAA
1188073 TAAATTTGAG
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
73 40 0.59
75 28 0.41
ACGTcount: A:0.41, C:0.18, G:0.11, T:0.31
Consensus pattern (74 bp):
AAAATTTTGAAAAAGAAAAAACCAATGAAGGGAATATAATTCGAACTCATCCTCCCTTCTATTTT
CCTCTGAAA
Found at i:1189179 original size:2 final size:2
Alignment explanation
Indices: 1189172--1189202 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1189162 GTACTTTGAA
1189172 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1189203 AAATGAACTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1191274 original size:104 final size:103
Alignment explanation
Indices: 1191144--1191351 Score: 355
Period size: 104 Copynumber: 2.0 Consensus size: 103
1191134 GCGATAAAAC
* *
1191144 TATAAAAAAATTTAAATTTTTTTTTTATCAATAAGATTTTTTTAAGAGGA-TAAATCAACTATTT
1 TATAAAAAAATTTAAATCTTTTTTTTATCAATAAGATTTTTTTAAGA-GATTAAATCAACTACTT
1191208 ACCTTACTTTTTTCTCAAAAATAAAAATTAATTGCAATA
65 ACCTTACTTTTTTCTCAAAAATAAAAATTAATTGCAATA
*
1191247 TATAAAAAAATTTTAAGTCTTTTTTTTATCAATAAGATTTTTTTAAGAGATTAAATCAACTACTT
1 TATAAAAAAA-TTTAAATCTTTTTTTTATCAATAAGATTTTTTTAAGAGATTAAATCAACTACTT
*
1191312 ACCTTATTTTTTTCTCAAAAATAAAAATTAATTGCAATA
65 ACCTTACTTTTTTCTCAAAAATAAAAATTAATTGCAATA
1191351 T
1 T
1191352 TTTTTCCACG
Statistics
Matches: 99, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
103 12 0.12
104 87 0.88
ACGTcount: A:0.42, C:0.09, G:0.05, T:0.44
Consensus pattern (103 bp):
TATAAAAAAATTTAAATCTTTTTTTTATCAATAAGATTTTTTTAAGAGATTAAATCAACTACTTA
CCTTACTTTTTTCTCAAAAATAAAAATTAATTGCAATA
Found at i:1191403 original size:19 final size:21
Alignment explanation
Indices: 1191362--1191406 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 21
1191352 TTTTTCCACG
*
1191362 TAATTTTTTATTTTCTTATTAA
1 TAATTTTTTA-TTTCTTAATAA
1191384 TAATTTTTTA-TT-TTAATAA
1 TAATTTTTTATTTCTTAATAA
1191403 TAAT
1 TAAT
1191407 AGATAATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 10 0.45
20 2 0.09
22 10 0.45
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (21 bp):
TAATTTTTTATTTCTTAATAA
Found at i:1191406 original size:22 final size:22
Alignment explanation
Indices: 1191362--1191407 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
1191352 TTTTTCCACG
** *
1191362 TAATTTTTTATTTTCTTATTAA
1 TAATTTTTTATTTTAATAATAA
1191384 TAATTTTTTATTTTAATAATAA
1 TAATTTTTTATTTTAATAATAA
1191406 TA
1 TA
1191408 GATAATAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (22 bp):
TAATTTTTTATTTTAATAATAA
Found at i:1191963 original size:17 final size:17
Alignment explanation
Indices: 1191938--1191992 Score: 67
Period size: 17 Copynumber: 3.3 Consensus size: 17
1191928 ATAAATTTAA
*
1191938 TATTTGAATCTAAAAAT
1 TATTCGAATCTAAAAAT
* *
1191955 TATTCGAATATATAAAT
1 TATTCGAATCTAAAAAT
*
1191972 TATT-GAATCTACAAAT
1 TATTCGAATCTAAAAAT
1191988 TATTC
1 TATTC
1191993 AAATTCCCAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
16 14 0.44
17 18 0.56
ACGTcount: A:0.44, C:0.09, G:0.05, T:0.42
Consensus pattern (17 bp):
TATTCGAATCTAAAAAT
Found at i:1191987 original size:16 final size:16
Alignment explanation
Indices: 1191941--1191991 Score: 66
Period size: 16 Copynumber: 3.1 Consensus size: 16
1191931 AATTTAATAT
1191941 TTGAATCTAAAAATTA
1 TTGAATCTAAAAATTA
* *
1191957 TTCGAATATATAAATTA
1 TT-GAATCTAAAAATTA
*
1191974 TTGAATCTACAAATTA
1 TTGAATCTAAAAATTA
1191990 TT
1 TT
1191992 CAAATTCCCA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
16 16 0.53
17 14 0.47
ACGTcount: A:0.45, C:0.08, G:0.06, T:0.41
Consensus pattern (16 bp):
TTGAATCTAAAAATTA
Found at i:1192350 original size:13 final size:13
Alignment explanation
Indices: 1192332--1192357 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1192322 TCATAATATT
1192332 AATTAATTTTATC
1 AATTAATTTTATC
1192345 AATTAATTTTATC
1 AATTAATTTTATC
1192358 TCATTTATTA
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:0.08, G:0.00, T:0.54
Consensus pattern (13 bp):
AATTAATTTTATC
Found at i:1192390 original size:50 final size:50
Alignment explanation
Indices: 1192333--1192547 Score: 162
Period size: 50 Copynumber: 4.4 Consensus size: 50
1192323 CATAATATTA
*
1192333 ATTAATTTTATCAATTAATTTTATCTCATTTATTATTTTTAATATAATAG
1 ATTAATTTTATCAATTAATTTTATCTCATTTATTATATTTAATATAATAG
* ** * *
1192383 ATTAATTTTATCACATT-CTTATTAT-AGATTCATTGA-ATTTGATATAATAG
1 ATTAATTTTATCA-ATTAATT-TTATCTCATTTATT-ATATTTAATATAATAG
* * * * * *
1192433 AATGATTTTAACAATTAATTTTATCTCATATATTATGTTTAATATAAGAG
1 ATTAATTTTATCAATTAATTTTATCTCATTTATTATATTTAATATAATAG
** * * *
1192483 ATTAATTTCCTC---TCA---T-TCTCATTTATTAAATTTAATATAATAT
1 ATTAATTTTATCAATTAATTTTATCTCATTTATTATATTTAATATAATAG
* *
1192526 ATTAATTTTATTAATTATTTTT
1 ATTAATTTTATCAATTAATTTT
1192548 TATTTTTTTA
Statistics
Matches: 120, Mismatches: 33, Indels: 25
0.67 0.19 0.14
Matches are distributed among these distances:
43 31 0.26
44 1 0.01
46 1 0.01
47 2 0.02
49 9 0.08
50 68 0.57
51 8 0.07
ACGTcount: A:0.36, C:0.07, G:0.04, T:0.52
Consensus pattern (50 bp):
ATTAATTTTATCAATTAATTTTATCTCATTTATTATATTTAATATAATAG
Found at i:1192552 original size:19 final size:18
Alignment explanation
Indices: 1192530--1192571 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
1192520 TAATATATTA
*
1192530 ATTTTATTAATTATTTTTT
1 ATTTTATTAACT-TTTTTT
*
1192549 ATTTTTTTAACTTTTTTT
1 ATTTTATTAACTTTTTTT
1192567 ATTTT
1 ATTTT
1192572 CTCATTCATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.76
Consensus pattern (18 bp):
ATTTTATTAACTTTTTTT
Found at i:1193510 original size:125 final size:125
Alignment explanation
Indices: 1193186--1193517 Score: 318
Period size: 130 Copynumber: 2.6 Consensus size: 125
1193176 TCTAAAAATA
* * * * *
1193186 TATTACATCAAAAATTTTTCTATCATACCTAACAAAAAAATATAAAATTATTAGGAATGTAGCAT
1 TATTACATTAAAAAATTTTC-ATCATACCTAACAAAAAAATATAAAGTTATTA--AATATAGAAT
* * *
1193251 ACGTGATACAATTTTCGATCAACCTTTTTTATTGATTCAAGAACAAAATAGAAGAAAAAAAGATT
63 ACATGATGCAA-TCTCGATCAACCTTTTTTATTGATTCAAGAACAAAATAG-AGAAAAAAAGATT
* * *
1193316 TATTACA-TCAAAAATTTATCCATCATACCTAAGAAAGAAAA-ATATAGTTATTAAGAGTAT-GA
1 TATTACATTAAAAAATTT-T-CATCATACCTAACAAA-AAAATATAAAGTTATTAA-A-TATAG-
* * * * *
1193378 AACACATGATGCAATCTCAGAAT-AACC-TTTTTATTGATTCAAGGATAAGATAG-G-AGAAAAG
60 AATACATGATGCAATCTC-G-ATCAACCTTTTTTATTGATTCAAGAACAAAATAGAGAAAAAAAG
1193439 ATT
123 ATT
* *
1193442 TATTACATTAAAAAAATTTCATCATACCTAATAAAAAAATATAAAGTTATTACATATATAGAATA
1 TATTACATTAAAAAATTTTCATCATACCTAACAAAAAAATATAAAGTTATTA-A-ATATAGAATA
1193507 CATGATGCAAT
64 CATGATGCAAT
1193518 TCAATTTTAA
Statistics
Matches: 168, Mismatches: 22, Indels: 29
0.77 0.10 0.13
Matches are distributed among these distances:
124 4 0.02
125 43 0.26
126 20 0.12
127 9 0.05
128 1 0.01
129 35 0.21
130 49 0.29
131 7 0.04
ACGTcount: A:0.47, C:0.12, G:0.10, T:0.31
Consensus pattern (125 bp):
TATTACATTAAAAAATTTTCATCATACCTAACAAAAAAATATAAAGTTATTAAATATAGAATACA
TGATGCAATCTCGATCAACCTTTTTTATTGATTCAAGAACAAAATAGAGAAAAAAAGATT
Found at i:1194824 original size:21 final size:21
Alignment explanation
Indices: 1194800--1194853 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 21
1194790 CATTGCAAAT
*
1194800 TAAAAAATTAAATTT-TTTACA
1 TAAAAAATTAAATTTATATA-A
*
1194821 TAAAAAAATTAAATTTATATAT
1 T-AAAAAATTAAATTTATATAA
1194843 TAAAAAATTAA
1 TAAAAAATTAA
1194854 TCATGCATTG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 11 0.38
22 15 0.52
23 3 0.10
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (21 bp):
TAAAAAATTAAATTTATATAA
Found at i:1194829 original size:22 final size:21
Alignment explanation
Indices: 1194801--1194853 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
1194791 ATTGCAAATT
*
1194801 AAAAAATTAAATTTTTTACATA
1 AAAAAATTAAA-TTTATACATA
* *
1194823 AAAAAATTAAATTTATATATT
1 AAAAAATTAAATTTATACATA
1194844 AAAAAATTAA
1 AAAAAATTAA
1194854 TCATGCATTG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 17 0.61
22 11 0.39
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (21 bp):
AAAAAATTAAATTTATACATA
Found at i:1197149 original size:3 final size:3
Alignment explanation
Indices: 1197141--1197165 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
1197131 ATGACATTGG
1197141 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
1197166 GCAAATCTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:1206697 original size:13 final size:13
Alignment explanation
Indices: 1206679--1206703 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1206669 CAATTCAAGT
1206679 ATGTATCGATACA
1 ATGTATCGATACA
1206692 ATGTATCGATAC
1 ATGTATCGATAC
1206704 TAAGTGAGTT
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):
ATGTATCGATACA
Found at i:1206789 original size:13 final size:13
Alignment explanation
Indices: 1206771--1206795 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1206761 TACTAAGAAC
1206771 ATGTATCGATACA
1 ATGTATCGATACA
1206784 ATGTATCGATAC
1 ATGTATCGATAC
1206796 TAAACAATAT
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):
ATGTATCGATACA
Found at i:1215070 original size:13 final size:13
Alignment explanation
Indices: 1215052--1215076 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1215042 TACTAAGAAC
1215052 ATGTATCGATACA
1 ATGTATCGATACA
1215065 ATGTATCGATAC
1 ATGTATCGATAC
1215077 TAAGCAATAT
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):
ATGTATCGATACA
Found at i:1215076 original size:32 final size:33
Alignment explanation
Indices: 1215033--1215095 Score: 92
Period size: 32 Copynumber: 1.9 Consensus size: 33
1215023 TGCTAGTTTT
*
1215033 ATGTATTGATACTAAG-AACATGTATCGATACA
1 ATGTATCGATACTAAGCAACATGTATCGATACA
* *
1215065 ATGTATCGATACTAAGCAATATGTGTCGATA
1 ATGTATCGATACTAAGCAACATGTATCGATA
1215096 TATCTAGGTG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 15 0.56
33 12 0.44
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (33 bp):
ATGTATCGATACTAAGCAACATGTATCGATACA
Found at i:1218433 original size:50 final size:50
Alignment explanation
Indices: 1218355--1218686 Score: 576
Period size: 50 Copynumber: 6.6 Consensus size: 50
1218345 AGTTGTTGCC
* * * *
1218355 ATTGTTGACTATCCTTCACC-ACCGTTTGACAATAGAGAGAGGTGGTCGTA
1 ATTGTTGACGATTCTTCACCAACC-TTTGACAATAGAGAGAGGTGGCCATA
*
1218405 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATT
1 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
*
1218455 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATT
1 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
1218505 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
1 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
*
1218555 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATT
1 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
1218605 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
1 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
*
1218655 ATTGTTGATGATTCTTCACCAACCTTTGACAA
1 ATTGTTGACGATTCTTCACCAACCTTTGACAA
1218687 ATGTGACCAT
Statistics
Matches: 272, Mismatches: 9, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
50 269 0.99
51 3 0.01
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.30
Consensus pattern (50 bp):
ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
Found at i:1223164 original size:50 final size:50
Alignment explanation
Indices: 1223089--1223420 Score: 592
Period size: 50 Copynumber: 6.6 Consensus size: 50
1223079 AGTTGTTGCC
* * * *
1223089 ATTGTTGACTATCCTTCACCAACCTTTGACAATAGAGAGAGGTGGTCGTA
1 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
* *
1223139 ATTGTTGACGATTCTTCACCAACCTTTGACAATAAAGAGAGGTGGCCATT
1 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
*
1223189 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATT
1 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
1223239 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
1 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
*
1223289 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATT
1 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
1223339 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
1 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
1223389 ATTGTTGACGATTCTTCACCAACCTTTGACAA
1 ATTGTTGACGATTCTTCACCAACCTTTGACAA
1223421 ATGTGGCCAT
Statistics
Matches: 272, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 272 1.00
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (50 bp):
ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
Found at i:1223579 original size:91 final size:91
Alignment explanation
Indices: 1223419--1223607 Score: 360
Period size: 91 Copynumber: 2.1 Consensus size: 91
1223409 AACCTTTGAC
1223419 AAATGTGGCCATAATTGTTGACTCTAAGTATATCAAGTAGGGCTATAAATAGCCCTTAAGTTCAT
1 AAAT-TGGCCATAATTGTTGACTCTAAGTATATCAAGTAGGGCTATAAATAGCCCTTAAGTTCAT
1223484 TCATTTGATATATCCCAAAATTGAGAG
65 TCATTTGATATATCCCAAAATTGAGAG
*
1223511 AAATTGGCCATAATTGTTGACTCTAAGTATATCAAGTATGGCTATAAATAGCCCTTAAGTTCATT
1 AAATTGGCCATAATTGTTGACTCTAAGTATATCAAGTAGGGCTATAAATAGCCCTTAAGTTCATT
1223576 CATTTGATATATCCCAAAATTGAGAG
66 CATTTGATATATCCCAAAATTGAGAG
1223602 AAATTG
1 AAATTG
1223608 AAAGAAATAA
Statistics
Matches: 96, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
91 92 0.96
92 4 0.04
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.33
Consensus pattern (91 bp):
AAATTGGCCATAATTGTTGACTCTAAGTATATCAAGTAGGGCTATAAATAGCCCTTAAGTTCATT
CATTTGATATATCCCAAAATTGAGAG
Found at i:1223588 original size:45 final size:45
Alignment explanation
Indices: 1223447--1223588 Score: 110
Period size: 45 Copynumber: 3.1 Consensus size: 45
1223437 TGACTCTAAG
*
1223447 TATATCAAGTAGGGCTATAAATAGCCCTTAAGTTCATTCATTTGA
1 TATATCAAGTATGGCTATAAATAGCCCTTAAGTTCATTCATTTGA
* * ** * * * * * * * *
1223492 TATATCCCAA-AATTGAGAGAAATTGGCCATAA-TT-GTTGACTCTAA
1 TATAT--CAAGTATGGCTATAAATAGCCCTTAAGTTCATTCA-TTTGA
1223537 GTATATCAAGTATGGCTATAAATAGCCCTTAAGTTCATTCATTTGA
1 -TATATCAAGTATGGCTATAAATAGCCCTTAAGTTCATTCATTTGA
1223583 TATATC
1 TATATC
1223589 CCAAAATTGA
Statistics
Matches: 65, Mismatches: 25, Indels: 14
0.62 0.24 0.13
Matches are distributed among these distances:
44 6 0.09
45 30 0.46
46 23 0.35
47 6 0.09
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (45 bp):
TATATCAAGTATGGCTATAAATAGCCCTTAAGTTCATTCATTTGA
Found at i:1226312 original size:10 final size:10
Alignment explanation
Indices: 1226269--1226339 Score: 62
Period size: 9 Copynumber: 7.2 Consensus size: 10
1226259 TCTATACGTG
1226269 AATAAATAATGA
1 AATAAAT-AT-A
1226281 AATAAA-ATA
1 AATAAATATA
*
1226290 ATTAAAT-TA
1 AATAAATATA
1226299 AATAAATATA
1 AATAAATATA
1226309 AAT-AATATA
1 AATAAATATA
1226318 AA-AAATTATA
1 AATAAA-TATA
1226328 AA-AATATATA
1 AATAA-ATATA
1226338 AA
1 AA
1226340 ATTAATTTAA
Statistics
Matches: 52, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
9 24 0.46
10 21 0.40
11 1 0.02
12 6 0.12
ACGTcount: A:0.69, C:0.00, G:0.01, T:0.30
Consensus pattern (10 bp):
AATAAATATA
Found at i:1226340 original size:10 final size:10
Alignment explanation
Indices: 1226304--1226340 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
1226294 AATTAAATAA
1226304 ATATAAATAAT
1 ATATAAA-AAT
1226315 ATA-AAAAAT
1 ATATAAAAAT
1226324 -TATAAAAAT
1 ATATAAAAAT
1226333 ATATAAAA
1 ATATAAAA
1226341 TTAATTTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
8 2 0.08
9 9 0.38
10 10 0.42
11 3 0.12
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (10 bp):
ATATAAAAAT
Found at i:1226342 original size:18 final size:19
Alignment explanation
Indices: 1226305--1226343 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
1226295 ATTAAATAAA
1226305 TATAAATAATATAAAAAAT
1 TATAAATAATATAAAAAAT
*
1226324 TATAAA-AATATATAAAAT
1 TATAAATAATATAAAAAAT
1226342 TA
1 TA
1226344 ATTTAAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
TATAAATAATATAAAAAAT
Found at i:1230723 original size:2 final size:2
Alignment explanation
Indices: 1230716--1230744 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1230706 CCAGACCTCC
1230716 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1230745 ATTTTAATGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:1231567 original size:17 final size:16
Alignment explanation
Indices: 1231504--1231581 Score: 95
Period size: 16 Copynumber: 4.8 Consensus size: 16
1231494 TTGTCTTTTT
1231504 ATTTAAATTATTTTAA
1 ATTTAAATTATTTTAA
1231520 ATTTAAATTATTTTAA
1 ATTTAAATTATTTTAA
* *
1231536 GTTTTAA-TATTTTTAA
1 ATTTAAATTA-TTTTAA
*
1231552 ATTTAAATTTTTTTTAA
1 ATTTAAA-TTATTTTAA
*
1231569 ATTCAAATTATTT
1 ATTTAAATTATTT
1231582 CGAACTTAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
15 2 0.04
16 37 0.71
17 12 0.23
18 1 0.02
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.59
Consensus pattern (16 bp):
ATTTAAATTATTTTAA
Found at i:1231599 original size:49 final size:48
Alignment explanation
Indices: 1231504--1231598 Score: 111
Period size: 49 Copynumber: 1.9 Consensus size: 48
1231494 TTGTCTTTTT
* * * *
1231504 ATTTAAATTATTTTAAATTTAAATTATTTTAAGTTTTAATATTTTTAA
1 ATTTAAATTATTTTAAATTCAAATTATTTGAAGCTTAAATATTTTTAA
*
1231552 ATTTAAATTTTTTTTAAATTCAAATTATTTCGAA-CTTAAATCATTTT
1 ATTTAAA-TTATTTTAAATTCAAATTATTT-GAAGCTTAAAT-ATTTT
1231599 AGATAATGTT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
48 7 0.18
49 25 0.64
50 7 0.18
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (48 bp):
ATTTAAATTATTTTAAATTCAAATTATTTGAAGCTTAAATATTTTTAA
Found at i:1233526 original size:23 final size:23
Alignment explanation
Indices: 1233500--1233570 Score: 56
Period size: 23 Copynumber: 3.1 Consensus size: 23
1233490 TATTTCATAT
1233500 ATTAAGTTAAAGATTCACTATTA
1 ATTAAGTTAAAGATTCACTATTA
** ** * *
1233523 ATTACTTTTATTGA-TAATTA-TA
1 ATTA-AGTTAAAGATTCACTATTA
1233545 TATTAAGTTAAAGATTCACTATTA
1 -ATTAAGTTAAAGATTCACTATTA
1233569 AT
1 AT
1233571 CATATAATAA
Statistics
Matches: 32, Mismatches: 12, Indels: 8
0.62 0.23 0.15
Matches are distributed among these distances:
22 7 0.22
23 18 0.56
24 7 0.22
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.45
Consensus pattern (23 bp):
ATTAAGTTAAAGATTCACTATTA
Found at i:1233581 original size:41 final size:45
Alignment explanation
Indices: 1233496--1233585 Score: 125
Period size: 46 Copynumber: 2.1 Consensus size: 45
1233486 AGTTTATTTC
* *
1233496 ATATATTAAGTTAAAGATTCACTATTAATTACTTTTATTGATAATT
1 ATATATTAAGTTAAAGATTCACTATTAATTAC-TATATTAATAATT
1233542 ATATATTAAGTTAAAGATTCACTATTAA-T-C-ATA-TAATAATT
1 ATATATTAAGTTAAAGATTCACTATTAATTACTATATTAATAATT
1233583 ATA
1 ATA
1233586 AATACCTTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
41 10 0.24
42 2 0.05
44 1 0.02
45 1 0.02
46 28 0.67
ACGTcount: A:0.43, C:0.07, G:0.06, T:0.44
Consensus pattern (45 bp):
ATATATTAAGTTAAAGATTCACTATTAATTACTATATTAATAATT
Found at i:1234926 original size:6 final size:6
Alignment explanation
Indices: 1234917--1234946 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
1234907 TTTTTATTAT
1234917 ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA
1 ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA
1234947 CTAATATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
ATTAAA
Found at i:1234961 original size:50 final size:49
Alignment explanation
Indices: 1234874--1234974 Score: 116
Period size: 50 Copynumber: 2.0 Consensus size: 49
1234864 AAATACTAAG
* * *
1234874 TTAAAATTTAATTATAAATTAAATAAATTTAAATTTTTATTATATTAAAA
1 TTAAAATTAAATTATAAATTAAATAAATATAAATTTTT-TTAAATTAAAA
* *
1234924 TTAAAATTAAAATTA-AAATTAAACT-AATATAATTTTTTTTAAATTTAAA
1 TTAAAATT-AAATTATAAATTAAA-TAAATATAAATTTTTTTAAATTAAAA
1234973 TT
1 TT
1234975 TTTAATTTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
49 11 0.25
50 27 0.61
51 6 0.14
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (49 bp):
TTAAAATTAAATTATAAATTAAATAAATATAAATTTTTTTAAATTAAAA
Found at i:1235684 original size:12 final size:12
Alignment explanation
Indices: 1235667--1235691 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1235657 TGCTTTACTT
1235667 ATAAAAAAATAA
1 ATAAAAAAATAA
1235679 ATAAAAAAATAA
1 ATAAAAAAATAA
1235691 A
1 A
1235692 ATTATTATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (12 bp):
ATAAAAAAATAA
Found at i:1240545 original size:20 final size:21
Alignment explanation
Indices: 1240522--1240570 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
1240512 AGGCACCGTG
*
1240522 TCGATACATAAAT-GAATGTA
1 TCGATACATAAATAAAATGTA
**
1240542 TCGATACATACCTAAAATGTA
1 TCGATACATAAATAAAATGTA
1240563 TCGATACA
1 TCGATACA
1240571 AAACCATGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 11 0.44
21 14 0.56
ACGTcount: A:0.43, C:0.16, G:0.12, T:0.29
Consensus pattern (21 bp):
TCGATACATAAATAAAATGTA
Found at i:1240642 original size:40 final size:40
Alignment explanation
Indices: 1240593--1240709 Score: 173
Period size: 40 Copynumber: 3.0 Consensus size: 40
1240583 ATTCTGGAAG
*
1240593 GAAATTATATCGATACATTTTTCAATGTATTGATACATAA
1 GAAATTATATCGATACATTTTTCAATGTATCGATACATAA
*
1240633 GAAATTATATCAATACATTTTTCAATGTATCGATACATAA
1 GAAATTATATCGATACATTTTTCAATGTATCGATACATAA
* * * *
1240673 GAAATTATATTGATACA-TTCTCATTGTATCAATACAT
1 GAAATTATATCGATACATTTTTCAATGTATCGATACAT
1240710 TCTGAGTTTT
Statistics
Matches: 70, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 17 0.24
40 53 0.76
ACGTcount: A:0.40, C:0.12, G:0.09, T:0.39
Consensus pattern (40 bp):
GAAATTATATCGATACATTTTTCAATGTATCGATACATAA
Found at i:1244423 original size:20 final size:20
Alignment explanation
Indices: 1244398--1244453 Score: 103
Period size: 20 Copynumber: 2.8 Consensus size: 20
1244388 CTGCCAAGGA
*
1244398 AATGTATCGAGACATTATTC
1 AATGTATCGATACATTATTC
1244418 AATGTATCGATACATTATTC
1 AATGTATCGATACATTATTC
1244438 AATGTATCGATACATT
1 AATGTATCGATACATT
1244454 GTATCGATAC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (20 bp):
AATGTATCGATACATTATTC
Found at i:1244458 original size:13 final size:13
Alignment explanation
Indices: 1244440--1244465 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1244430 CATTATTCAA
1244440 TGTATCGATACAT
1 TGTATCGATACAT
1244453 TGTATCGATACAT
1 TGTATCGATACAT
1244466 CGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1244517 original size:104 final size:104
Alignment explanation
Indices: 1244399--1244586 Score: 272
Period size: 104 Copynumber: 1.8 Consensus size: 104
1244389 TGCCAAGGAA
* *
1244399 ATGTATCGAGACATTATT-CAATGTATCGATACATTATTCAATGTATCGATACATTGTATCGATA
1 ATGTATCGAGACATT-TTGCAATGTATCGATACATCACTCAATGTATCGATACATTGTATCGATA
*
1244463 CATCG-ATCTTTGTATCGATATATCTAAGAAGTTTACCCAG
65 CATCGCA-CATTGTATCGATATATCTAAGAAGTTTACCCAG
* * * *
1244503 ATGTATCGATACATTTTGCATTGTATCGATACATCGCTCATTGTATCGATACATTGTATCGATAC
1 ATGTATCGAGACATTTTGCAATGTATCGATACATCACTCAATGTATCGATACATTGTATCGATAC
*
1244568 ATTGCACATTGTATCGATA
66 ATCGCACATTGTATCGATA
1244587 CATTTTACAA
Statistics
Matches: 74, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
103 2 0.03
104 71 0.96
105 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (104 bp):
ATGTATCGAGACATTTTGCAATGTATCGATACATCACTCAATGTATCGATACATTGTATCGATAC
ATCGCACATTGTATCGATATATCTAAGAAGTTTACCCAG
Found at i:1244529 original size:20 final size:19
Alignment explanation
Indices: 1244504--1244611 Score: 93
Period size: 20 Copynumber: 5.8 Consensus size: 19
1244494 TTTACCCAGA
1244504 TGTATCGATACATTTTGCAT
1 TGTATCGATACATTTT-CAT
**
1244524 TGTATCGATACATCGCTCAT
1 TGTATCGATACAT-TTTCAT
1244544 TGTATCGAT--A----CAT
1 TGTATCGATACATTTTCAT
**
1244557 TGTATCGATACATTGCACAT
1 TGTATCGATACATT-TTCAT
*
1244577 TGTATCGATACATTTTACAA
1 TGTATCGATACATTTT-CAT
1244597 TGTATCGATACATTT
1 TGTATCGATACATTT
1244612 AGGCATTTTT
Statistics
Matches: 74, Mismatches: 5, Indels: 18
0.76 0.05 0.19
Matches are distributed among these distances:
13 12 0.16
15 1 0.01
18 1 0.01
20 59 0.80
21 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.40
Consensus pattern (19 bp):
TGTATCGATACATTTTCAT
Found at i:1244563 original size:33 final size:33
Alignment explanation
Indices: 1244521--1244590 Score: 122
Period size: 33 Copynumber: 2.1 Consensus size: 33
1244511 ATACATTTTG
*
1244521 CATTGTATCGATACATCGCTCATTGTATCGATA
1 CATTGTATCGATACATCGCACATTGTATCGATA
*
1244554 CATTGTATCGATACATTGCACATTGTATCGATA
1 CATTGTATCGATACATCGCACATTGTATCGATA
1244587 CATT
1 CATT
1244591 TTACAATGTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (33 bp):
CATTGTATCGATACATCGCACATTGTATCGATA
Found at i:1244590 original size:13 final size:13
Alignment explanation
Indices: 1244541--1244571 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
1244531 ATACATCGCT
1244541 CATTGTATCGATA
1 CATTGTATCGATA
1244554 CATTGTATCGATA
1 CATTGTATCGATA
1244567 CATTG
1 CATTG
1244572 CACATTGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:1246988 original size:51 final size:50
Alignment explanation
Indices: 1246900--1247076 Score: 187
Period size: 51 Copynumber: 3.5 Consensus size: 50
1246890 ATTTCTAGAT
* * *
1246900 TTTTCAT-CTCGGGGATACTCCAA-TCCTGGTTTCATTTCCAAAACATCAA
1 TTTTCATAATCGGGGATACTCCAACTCC-GATTTTATTTCCAAAACATCAA
* * * *
1246949 TTTCTCTTAATCGGGGATACTCCAACTCCGATTTTATTTCTAAAACACCCA
1 TTT-TCATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACATCAA
* * * * *
1247000 TTTTCCATAATCGAGGATACTCCAACTCTGATTTTATTTCGAAAACACTGAC
1 TTTT-CATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACA-TCAA
*
1247052 TTTTCAAAATCGGGGATACTCCAAC
1 TTTTCATAATCGGGGATACTCCAAC
1247077 CCCATTATTT
Statistics
Matches: 106, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
49 3 0.03
50 4 0.04
51 92 0.87
52 7 0.07
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.34
Consensus pattern (50 bp):
TTTTCATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACATCAA
Found at i:1247143 original size:78 final size:77
Alignment explanation
Indices: 1247010--1247154 Score: 184
Period size: 78 Copynumber: 1.9 Consensus size: 77
1247000 TTTTCCATAA
* * * * *
1247010 TCGAGGATACTCCAACTCTGATTTTATTTCGAAAACACTGACTTTTCAAAATCGGGGATACTCCA
1 TCGAGGATACTCCAACCCCGATTTTATTTCGAAAACACTCAATTTCCAAAATCGGGGATACTCCA
1247075 ACCCCATTATTT
66 ACCCCATTATTT
* * * *
1247087 TCGAGGGATACTCCAACCCCGGTTTTATTTCTAAAACAC-CAATTCTCCACAATCGGGGATATTC
1 TCGA-GGATACTCCAACCCCGATTTTATTTCGAAAACACTCAATT-TCCAAAATCGGGGATACTC
1247151 CAAC
64 CAAC
1247155 TCCGATTTTA
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
77 7 0.12
78 50 0.88
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (77 bp):
TCGAGGATACTCCAACCCCGATTTTATTTCGAAAACACTCAATTTCCAAAATCGGGGATACTCCA
ACCCCATTATTT
Found at i:1247167 original size:51 final size:50
Alignment explanation
Indices: 1247091--1247205 Score: 167
Period size: 51 Copynumber: 2.3 Consensus size: 50
1247081 TTATTTTCGA
* *
1247091 GGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTCTCCACAATCG
1 GGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATT-TCCACAATCG
* * * *
1247142 GGGATATTCCAACTCCGATTTTATTTCCAAAACACTAATTTTCACAATCG
1 GGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTCCACAATCG
1247192 GGGATACTCCAACC
1 GGGATACTCCAACC
1247206 TCGTTATTTC
Statistics
Matches: 56, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
50 21 0.38
51 35 0.62
ACGTcount: A:0.30, C:0.29, G:0.12, T:0.29
Consensus pattern (50 bp):
GGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTCCACAATCG
Found at i:1247216 original size:31 final size:28
Alignment explanation
Indices: 1247188--1247259 Score: 96
Period size: 28 Copynumber: 2.6 Consensus size: 28
1247178 AATTTTCACA
1247188 ATCGGGGATACTCCAA-CCTCGTTATTTC
1 ATCGGGGATACTCCAATCC-CGTTATTTC
1247216 ATCGGGGATACTCCAATCCCGTTATTT-
1 ATCGGGGATACTCCAATCCCGTTATTTC
1247243 -TCGAGGGGATACTCCAA
1 ATC--GGGGATACTCCAA
1247260 CTCCGATTGT
Statistics
Matches: 41, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
26 2 0.05
28 37 0.90
29 2 0.05
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (28 bp):
ATCGGGGATACTCCAATCCCGTTATTTC
Found at i:1247224 original size:129 final size:129
Alignment explanation
Indices: 1246958--1247236 Score: 400
Period size: 129 Copynumber: 2.2 Consensus size: 129
1246948 ATTTCTCTTA
* * * *
1246958 ATCGGGGATACTCCAACTCCGATTTTATTTCTAAAACACCCATTTTCCATAATCGAGGATACTCC
1 ATCGGGGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTCTCCACAATCGAGGATACTCC
* * *
1247023 AACTCTGATTTTATTTCGAAAACACTGACTTTTCAAAATCGGGGATACTCCAACCCCATTATTT
66 AACTCCGATTTTATTTCCAAAACACTGAATTTTCAAAATCGGGGATACTCCAACCCCATTATTT
* * *
1247087 -TCGAGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTCTCCACAATCGGGGATATTC
1 ATCG-GGGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTCTCCACAATCGAGGATACTC
* * *
1247151 CAACTCCGATTTTATTTCCAAAACACT-AATTTTCACAATCGGGGATACTCCAACCTCGTTATTT
65 CAACTCCGATTTTATTTCCAAAACACTGAATTTTCAAAATCGGGGATACTCCAACCCCATTATTT
*
1247215 CATCGGGGATACTCCAATCCCG
1 -ATCGGGGATACTCCAACCCCG
1247237 TTATTTTCGA
Statistics
Matches: 133, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
128 36 0.27
129 94 0.71
130 3 0.02
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (129 bp):
ATCGGGGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTCTCCACAATCGAGGATACTCC
AACTCCGATTTTATTTCCAAAACACTGAATTTTCAAAATCGGGGATACTCCAACCCCATTATTT
Found at i:1247329 original size:107 final size:106
Alignment explanation
Indices: 1247141--1247338 Score: 310
Period size: 107 Copynumber: 1.9 Consensus size: 106
1247131 CTCCACAATC
* *
1247141 GGGGATATTCCAACTCCGATTTTATTTCCAAAACACTAATTTTCACAATCGGGGATACTCCAACC
1 GGGGATACTCCAACTCCGATTGTATTTCCAAAACACTAATTTTCACAATCGGGGATACTCCAACC
* *
1247206 TCGTTATTTCATCGGGGATACTCCAATCCCGTTATTTTCGA
66 CCGTTATTTCAGCGGGGATACTCCAATCCCGTTATTTTCGA
*
1247247 GGGGATACTCCAACTCCGATTGTATTTCCAAAGCA-TCAATTTCTCACAATCGGGGATACTCCAA
1 GGGGATACTCCAACTCCGATTGTATTTCCAAAACACT-AATTT-TCACAATCGGGGATACTCCAA
1247311 CCCCGTTATTTTC-GCGGGGATACTCCAA
64 CCCCGTTA-TTTCAGCGGGGATACTCCAA
1247339 CCCTGGCCTT
Statistics
Matches: 84, Mismatches: 5, Indels: 5
0.89 0.05 0.05
Matches are distributed among these distances:
105 1 0.01
106 37 0.44
107 42 0.50
108 4 0.05
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.30
Consensus pattern (106 bp):
GGGGATACTCCAACTCCGATTGTATTTCCAAAACACTAATTTTCACAATCGGGGATACTCCAACC
CCGTTATTTCAGCGGGGATACTCCAATCCCGTTATTTTCGA
Found at i:1247352 original size:79 final size:79
Alignment explanation
Indices: 1247216--1247390 Score: 221
Period size: 79 Copynumber: 2.2 Consensus size: 79
1247206 TCGTTATTTC
* *
1247216 ATCGGGGATACTCCAATCCCGTTATTTTCGAGGGGATACTCCAACTCCGATTGTATTTCCAAAGC
1 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACTCCGACTGTATTTCCAAAGC
1247281 ATCAA-TTTCTCACA
66 ATCAATTTTCT-ACA
* * *
1247295 ATCGGGGATACTCCAACCCCGTTATTTTCGCGGGGATACTCCAAC-CCTGGCCT-TATTTCTAAA
1 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACTCC--GACTGTATTTCCAAA
* *
1247358 GCATCGATTTTCTATA
64 GCATCAATTTTCTACA
* *
1247374 ATCAGGGATATTCCAAC
1 ATCGGGGATACTCCAAC
1247391 TGCGTCCCCG
Statistics
Matches: 84, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
78 2 0.02
79 75 0.89
80 7 0.08
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.30
Consensus pattern (79 bp):
ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACTCCGACTGTATTTCCAAAGC
ATCAATTTTCTACA
Found at i:1259746 original size:1 final size:1
Alignment explanation
Indices: 1259742--1259808 Score: 62
Period size: 1 Copynumber: 67.0 Consensus size: 1
1259732 ATTCTTTTTC
* * * * * * * *
1259742 AAAAAAAAAACAAAAAAAAAACAAAAAAACAAAAAAAAAACAAAACAAAGAAAAAAGAGAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1259807 AA
1 AA
1259809 GGAAGAATCT
Statistics
Matches: 50, Mismatches: 16, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 50 1.00
ACGTcount: A:0.88, C:0.07, G:0.04, T:0.00
Consensus pattern (1 bp):
A
Found at i:1259757 original size:11 final size:11
Alignment explanation
Indices: 1259741--1259808 Score: 82
Period size: 12 Copynumber: 5.8 Consensus size: 11
1259731 CATTCTTTTT
1259741 CAAAAAAAAAA
1 CAAAAAAAAAA
1259752 CAAAAAAAAAA
1 CAAAAAAAAAA
1259763 CAAAAAAACAAA
1 CAAAAAAA-AAA
*
1259775 AAAAAAACAAAA
1 CAAAAAA-AAAA
1259787 CAAAGAAAAAAGA
1 CAAA-AAAAAA-A
*
1259800 GAAAAAAAA
1 CAAAAAAAA
1259809 GGAAGAATCT
Statistics
Matches: 50, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
11 19 0.38
12 23 0.46
13 8 0.16
ACGTcount: A:0.87, C:0.09, G:0.04, T:0.00
Consensus pattern (11 bp):
CAAAAAAAAAA
Found at i:1259769 original size:19 final size:19
Alignment explanation
Indices: 1259745--1259797 Score: 88
Period size: 19 Copynumber: 2.7 Consensus size: 19
1259735 CTTTTTCAAA
1259745 AAAAAAACAAAAAAAAAAC
1 AAAAAAACAAAAAAAAAAC
1259764 AAAAAAACAAAAAAAAAAC
1 AAAAAAACAAAAAAAAAAC
*
1259783 AAAACAAAGAAAAAA
1 AAAA-AAACAAAAAA
1259798 GAGAAAAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 23 0.72
20 9 0.28
ACGTcount: A:0.89, C:0.09, G:0.02, T:0.00
Consensus pattern (19 bp):
AAAAAAACAAAAAAAAAAC
Found at i:1259777 original size:30 final size:29
Alignment explanation
Indices: 1259741--1259808 Score: 91
Period size: 30 Copynumber: 2.3 Consensus size: 29
1259731 CATTCTTTTT
1259741 CAAAAAAAAAACAAAAAAAAAACAAAAAAA
1 CAAAAAAAAAACAAAAAAAAAA-AAAAAAA
* * *
1259771 CAAAAAAAAAACAAAACAAAGAAAAAAGA
1 CAAAAAAAAAACAAAAAAAAAAAAAAAAA
*
1259800 GAAAAAAAA
1 CAAAAAAAA
1259809 GGAAGAATCT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 14 0.41
30 20 0.59
ACGTcount: A:0.87, C:0.09, G:0.04, T:0.00
Consensus pattern (29 bp):
CAAAAAAAAAACAAAAAAAAAAAAAAAAA
Found at i:1259805 original size:19 final size:17
Alignment explanation
Indices: 1259742--1259797 Score: 69
Period size: 17 Copynumber: 3.2 Consensus size: 17
1259732 ATTCTTTTTC
*
1259742 AAAAAAAAAACAAAAAAA
1 AAAAAAAAAAC-AAAGAA
1259760 AAACAAAAAAACAAA-AA
1 AAA-AAAAAAACAAAGAA
*
1259777 AAAAACAAAACAAAGAA
1 AAAAAAAAAACAAAGAA
1259794 AAAA
1 AAAA
1259798 GAGAAAAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
16 10 0.29
17 11 0.31
18 6 0.17
19 8 0.23
ACGTcount: A:0.89, C:0.09, G:0.02, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAACAAAGAA
Found at i:1260926 original size:55 final size:55
Alignment explanation
Indices: 1260805--1261261 Score: 513
Period size: 55 Copynumber: 8.0 Consensus size: 55
1260795 GACGCCTTTT
*
1260805 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGTAGGACG
1 CCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCTAGTCCTCAAAGAGCAGGACG
* * * * * *
1260861 CCTTTTAAAGCCCACACAAGTTGGTGACACTTCCCAATCCTCAAAGAGCAGGACG
1 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGACG
* * *
1260916 CCTTTCAAAGCCCACACGAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCATGACA
1 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGACG
1260971 CCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGACG
1 CC-TTT-C----AAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGACG
*
1261032 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACG
1 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGACG
* * *
1261087 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTT-TCAGTCCTTAAAGAGCAAGATGCTTT
1 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCT-AGTCCTCAAAGAGCAGGA--C--G
* * ** * *
1261146 CTCTTTTTAAAGCCCACATAAGTTGGTGGCACCTTCTAGTCCTCAAAAAGCAGGACACCTTT
1 C-C-TTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGG--A-C--G
* *
1261208 CCTTTTCAAAGCCCACACGAGTTGGTGGCACTTTTC-AGTCCTCAAAGAGTAGGA
1 CC-TTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCTAGTCCTCAAAGAGCAGGA
1261262 TGCACTTTAT
Statistics
Matches: 345, Mismatches: 39, Indels: 31
0.83 0.09 0.07
Matches are distributed among these distances:
55 166 0.48
56 30 0.09
57 2 0.01
59 3 0.01
60 4 0.01
61 130 0.38
62 9 0.03
63 1 0.00
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (55 bp):
CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGACG
Found at i:1261009 original size:27 final size:27
Alignment explanation
Indices: 1260979--1261119 Score: 66
Period size: 27 Copynumber: 5.1 Consensus size: 27
1260969 CACCTTTTCC
1260979 TTTTAAAGCCCACACAAGTTGGTGGCA
1 TTTTAAAGCCCACACAAGTTGGTGGCA
** * * * ** ** *
1261006 TTTTCTAGTCCTCAAAGAGCAGGACGCC
1 TTTTAAAGCCCACACA-AGTTGGTGGCA
*
1261034 TTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTTAAAGCCCACACAAGTTGGTGGCA
** * * * ** ** *
1261061 TTTTCCAGTCCTCAAAGAGCAGGACGCC
1 TTTTAAAGCCCACACA-AGTTGGTGGCA
*
1261089 TTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTTAAAGCCCACACAAGTTGGTGGCA
1261116 TTTT
1 TTTT
1261120 TCAGTCCTTA
Statistics
Matches: 68, Mismatches: 44, Indels: 4
0.59 0.38 0.03
Matches are distributed among these distances:
27 36 0.53
28 32 0.47
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (27 bp):
TTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:1261018 original size:116 final size:115
Alignment explanation
Indices: 1260805--1261261 Score: 542
Period size: 116 Copynumber: 4.0 Consensus size: 115
1260795 GACGCCTTTT
* *
1260805 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGTAGG--A-C--GCCTT
1 CCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCTAGTCCTCAAAGAGCAGGACACCTTTCCTT
* * * * *
1260865 TTAAAGCCCACACAAGTTGGTGACACTTCCCAATCCTCAAAGAGCAGGACG
65 TTAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGACG
* *
1260916 CCTTTCAAAGCCCACACGAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCATGACACCTTTTCCTT
1 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGACACC-TTTCCTT
1260981 TTAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGACG
65 TTAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGACG
* *
1261032 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTTT-C---
1 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGACACCTTTCCTTT
* * *
1261093 -AAAGCCCACACAAGTTGGTGGCATTTT-TCAGTCCTTAAAGAGCAAGATGCTTT
66 TAAAGCCCACACAAGTTGGTGGCATTTTCT-AGTCCTCAAAGAGCAGGA--C--G
* * ** *
1261146 CTCTTTTTAAAGCCCACATAAGTTGGTGGCACCTTCTAGTCCTCAAAAAGCAGGACACCTTTCCT
1 C-C-TTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGACACCTTTCCT
* *
1261211 TTTCAAAGCCCACACGAGTTGGTGGCACTTTTC-AGTCCTCAAAGAGTAGGA
64 TTT-AAAGCCCACACAAGTTGGTGGCA-TTTTCTAGTCCTCAAAGAGCAGGA
1261262 TGCACTTTAT
Statistics
Matches: 298, Mismatches: 27, Indels: 31
0.84 0.08 0.09
Matches are distributed among these distances:
109 1 0.00
110 64 0.21
111 28 0.09
112 2 0.01
113 1 0.00
114 2 0.01
115 4 0.01
116 154 0.52
117 1 0.00
122 37 0.12
123 4 0.01
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (115 bp):
CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGACACCTTTCCTTT
TAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGACG
Found at i:1261075 original size:171 final size:171
Alignment explanation
Indices: 1260774--1261261 Score: 669
Period size: 171 Copynumber: 2.8 Consensus size: 171
1260764 CTCCTTCCAC
* *
1260774 TTTTC-AGTCCTCAAAGAGCATGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACTTT
1 TTTTCTAGTCCTCAAAGAGCATGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-TTT
* * * * * *
1260838 TCTAGTCCTCAAAGAGTAGGACGCCTTTTAAAGCCCACACAAGTTGGTGACACTTCCCAATCCTC
65 TCTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTC
*
1260903 AAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCA
130 AAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
1260945 TTTTCTAGTCCTCAAAGAGCATGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTT
1 TTTTCTAGTCCTCAAAGAGCATGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTT
1261010 CTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCA
66 CTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCA
1261075 AAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
131 AAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * ** * * **
1261116 TTTT-TCAGTCCTTAAAGAGCAAGA-TGCTTTCTCTTTTTAAAGCCCACATAAGTTGGTGGCACC
1 TTTTCT-AGTCCTCAAAGAGCATGACACCTTT-TCCTTTTAAAGCCCACACAAGTTGGTGGCATT
* * *
1261179 TTCTAGTCCTCAAAAAGCAGGACACCTTTCCTTTTCAAAGCCCACACGAGTTGGTGGCACTTTT-
64 TTCTAGTCCTCAAAGAGCAGG--A-C--GCC-TTTCAAAGCCCACACAAGTTGGTGGCA-TTTTC
*
1261243 CAGTCCTCAAAGAGTAGGA
122 CAGTCCTCAAAGAGCAGGA
1261262 TGCACTTTAT
Statistics
Matches: 286, Mismatches: 21, Indels: 14
0.89 0.07 0.04
Matches are distributed among these distances:
170 5 0.02
171 176 0.62
172 53 0.19
173 1 0.00
174 1 0.00
176 2 0.01
177 44 0.15
178 4 0.01
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (171 bp):
TTTTCTAGTCCTCAAAGAGCATGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTT
CTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCA
AAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:1262154 original size:13 final size:13
Alignment explanation
Indices: 1262136--1262161 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1262126 CATTATTCAA
1262136 TGTATCGATACAT
1 TGTATCGATACAT
1262149 TGTATCGATACAT
1 TGTATCGATACAT
1262162 CGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Done.