Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold194
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: 3945165
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1023 characters in sequence are not A, C, G, or T
File 16 of 24
Found at i:2592100 original size:33 final size:32
Alignment explanation
Indices: 2592040--2592103 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
2592030 TAGCCAAACT
*
2592040 TGTATCGATACACAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAGAATGTATCGATACAA
2592072 TGTATCGATACACCATAA-AATGTATCGATACA
1 TGTATCGATACA-CA-AAGAATGTATCGATACA
2592104 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 12 0.41
33 15 0.52
34 2 0.07
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACAAAGAATGTATCGATACAA
Found at i:2594009 original size:38 final size:37
Alignment explanation
Indices: 2593967--2594042 Score: 109
Period size: 38 Copynumber: 2.0 Consensus size: 37
2593957 TCATTATTGT
* *
2593967 AATGAATGTTTGCCTTGCT-ATTTTCTTTTCATGAATGC
1 AATGAATCTTTGCCTTGATAATTTT-TTTT-ATGAATGC
2594005 AATGAATCTTTGCCTTGATAATTTTTTTTATGAATGC
1 AATGAATCTTTGCCTTGATAATTTTTTTTATGAATGC
2594042 A
1 A
2594043 TGGGGGAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
37 9 0.26
38 21 0.60
39 5 0.14
ACGTcount: A:0.25, C:0.13, G:0.14, T:0.47
Consensus pattern (37 bp):
AATGAATCTTTGCCTTGATAATTTTTTTTATGAATGC
Found at i:2594862 original size:26 final size:23
Alignment explanation
Indices: 2594813--2594858 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
2594803 TTAAGTATAG
* *
2594813 ATGTTTTTCAAGCAATAAATCAA
1 ATGTTTTTCAAGAAAAAAATCAA
2594836 ATGTTTTTCAAGTAAAAATAATC
1 ATGTTTTTCAAG-AAAAA-AATC
2594859 CAAAGTATCG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 12 0.63
24 3 0.16
25 4 0.21
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.37
Consensus pattern (23 bp):
ATGTTTTTCAAGAAAAAAATCAA
Found at i:2598572 original size:20 final size:20
Alignment explanation
Indices: 2598547--2598670 Score: 86
Period size: 20 Copynumber: 5.7 Consensus size: 20
2598537 TTTTAACTAG
*
2598547 ATGTATCGATACATTGAAGA
1 ATGTATCGATACATTGAAAA
* * * * *
2598567 ATGTATCAATGCATTCATAC
1 ATGTATCGATACATTGAAAA
* *
2598587 ATGTATCAATACAATGAAAA
1 ATGTATCGATACATTGAAAA
2598607 ATGTATCGATACATCTGGGTAAAAGATAGA
1 ATGTATCGATACAT-T--G----A-A-A-A
2598637 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
2598657 ATGTATCGATACAT
1 ATGTATCGATACAT
2598671 CTGGGTAAAA
Statistics
Matches: 81, Mismatches: 13, Indels: 20
0.71 0.11 0.18
Matches are distributed among these distances:
20 56 0.69
21 2 0.02
22 1 0.01
23 2 0.02
27 2 0.02
28 1 0.01
29 2 0.02
30 15 0.19
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.30
Consensus pattern (20 bp):
ATGTATCGATACATTGAAAA
Found at i:2599892 original size:66 final size:64
Alignment explanation
Indices: 2599809--2599945 Score: 175
Period size: 66 Copynumber: 2.1 Consensus size: 64
2599799 AAAATGATTA
* *
2599809 TTTGAAAAGGGTTGCCACCGACTTGCATGGGCTTTTAAAAAAAATGTGCCACTAACTTGTGTGGG
1 TTTGAAAAGAGTTGCCACCGACTTGCATGGGC-TTTAAAAAAAAT-TGCCACCAACTTGTGTGGG
2599874 C
64 C
** * *** *
2599875 TTTGAAAAGAGTTGCCACCGACTTGTGTGGGCTTTGAAGGGAGTTGCCACCAACTTGTGTGGGC
1 TTTGAAAAGAGTTGCCACCGACTTGCATGGGCTTTAAAAAAAATTGCCACCAACTTGTGTGGGC
2599939 TTTGAAA
1 TTTGAAA
2599946 GGATACCACT
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
64 26 0.42
65 7 0.11
66 29 0.47
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (64 bp):
TTTGAAAAGAGTTGCCACCGACTTGCATGGGCTTTAAAAAAAATTGCCACCAACTTGTGTGGGC
Found at i:2599966 original size:28 final size:28
Alignment explanation
Indices: 2599868--2600403 Score: 513
Period size: 28 Copynumber: 18.5 Consensus size: 28
2599858 CACTAACTTG
* *
2599868 TGTGGGCTTTGAAAAGAGTTGCCACCGACTT
1 TGTGGGCTTTG-AAAG-GATGCCACTGAC-T
* **
2599899 GTGTGGGCTTTGAAGGGAGTTGCCACCAACTT
1 -TGTGGGCTTTGAAAGGA--TGCCACTGAC-T
*
2599931 GTGTGGGCTTTGAAAGGATACCACTGACT
1 -TGTGGGCTTTGAAAGGATGCCACTGACT
* *
2599960 TGTGGGCTTCGAAATGG-TGCCA-TAACT
1 TGTGGGCTTTGAAA-GGATGCCACTGACT
* * *
2599987 TGTGGGCTTTGAAATGATGCCACTAATT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
** * *
2600015 TACGGGCTTCGAAAGGATGCCACCGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
2600043 TGTGGGCTTCGAAATGGTATGCCACTAACT
1 TGTGGGCTTTGAAA-GG-ATGCCACTGACT
* * *
2600073 TGTGAGCTTTGAAAGGATGCCAATAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
2600101 TGTGGGCTTTGGAAAGG-TGCCACTGATTT
1 TGTGGGCTTT-GAAAGGATGCCACTGA-CT
* * *
2600130 GTGTGGGCTTTGAAAAAAGTTGCCACCGACT
1 -TGTGGGCTTTG--AAAGGATGCCACTGACT
* **
2600161 TGTGTGGACTTTGAAAAGAGTTACACTGACT
1 TGTG-GG-CTTTGAAAGGA-TGCCACTGACT
* * *
2600192 TGTGGGCTTTGAAAAAGGGTGCTACTAACT
1 TGTGGGCTTTG--AAAGGATGCCACTGACT
* * *
2600222 TGTGGGCTTTGAGAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
2600250 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
2600278 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* **
2600306 TGTGGGCTTTAAAAGGATATCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
2600334 TGTGGGCTTTGAAATGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
2600362 TGTGGGCTTTGAAATGG-TGCCACTGACT
1 TGTGGGCTTTGAAA-GGATGCCACTGACT
2600390 TGTGGGCTTTGAAA
1 TGTGGGCTTTGAAA
2600404 AGGGTTGTAT
Statistics
Matches: 428, Mismatches: 57, Indels: 42
0.81 0.11 0.08
Matches are distributed among these distances:
26 1 0.00
27 22 0.05
28 237 0.55
29 21 0.05
30 69 0.16
31 26 0.06
32 52 0.12
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGATGCCACTGACT
Found at i:2612662 original size:13 final size:13
Alignment explanation
Indices: 2612644--2612669 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2612634 ACATAAGTGT
2612644 TGTATCGATACAA
1 TGTATCGATACAA
2612657 TGTATCGATACAA
1 TGTATCGATACAA
2612670 AGCTACCCTG
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):
TGTATCGATACAA
Found at i:2612719 original size:20 final size:20
Alignment explanation
Indices: 2612694--2612748 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
2612684 CTGCCAAGGA
2612694 AATGTATCAATACATTATTC
1 AATGTATCAATACATTATTC
2612714 AATGTATCAATACATTATTC
1 AATGTATCAATACATTATTC
*
2612734 AATGTATCGATACAT
1 AATGTATCAATACAT
2612749 GCAGGCAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.40, C:0.15, G:0.07, T:0.38
Consensus pattern (20 bp):
AATGTATCAATACATTATTC
Found at i:2616350 original size:43 final size:43
Alignment explanation
Indices: 2616289--2616370 Score: 121
Period size: 43 Copynumber: 1.9 Consensus size: 43
2616279 ACCCTCCGTA
*
2616289 TTTGCATAGGAAAATACATCCA-TCGGATTAAACCTGATTCGCT
1 TTTGCATAGGAAAATACATCCACT-GGATTAAACCCGATTCGCT
* *
2616332 TTTGCATAGGGAAATACATCCACTGGATTGAACCCGATT
1 TTTGCATAGGAAAATACATCCACTGGATTAAACCCGATT
2616371 TGCTAAACCC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
43 34 0.97
44 1 0.03
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (43 bp):
TTTGCATAGGAAAATACATCCACTGGATTAAACCCGATTCGCT
Found at i:2619820 original size:18 final size:17
Alignment explanation
Indices: 2619805--2619846 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 17
2619795 AGTCAAAAGT
2619805 AAAAACACAAAAAAAAAC
1 AAAAACA-AAAAAAAAAC
2619823 AAAAACAAAAAAAACACAC
1 AAAAACAAAAAAAA-A-AC
2619842 AAAAA
1 AAAAA
2619847 AGAGTGCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 7 0.32
18 8 0.36
19 7 0.32
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (17 bp):
AAAAACAAAAAAAAAAC
Found at i:2621125 original size:31 final size:30
Alignment explanation
Indices: 2621053--2621328 Score: 327
Period size: 30 Copynumber: 9.1 Consensus size: 30
2621043 CAAATCTCTC
*
2621053 TTCTCAAAGTCCACGACTCAGTGGCATCTC
1 TTCTCAAAGTCCACGACTCAGTGGCATCTT
* * * *
2621083 TTCCCAAAGTCCATGGCTTAGTGGCATCTT
1 TTCTCAAAGTCCACGACTCAGTGGCATCTT
* *
2621113 TTCTTCAAAGTCCACGACTTAGTGGCAATCTC
1 TTC-TCAAAGTCCACGACTCAGTGGC-ATCTT
2621145 TTCTCAAAGTCCACGACTCAGTGGCATCTT
1 TTCTCAAAGTCCACGACTCAGTGGCATCTT
*
2621175 TTCTTCAAAGTCCATGACTCAGTGGCATCTT
1 TTC-TCAAAGTCCACGACTCAGTGGCATCTT
* * *
2621206 ATCCCAAAGTCCACGACTTAGTGGCATCTT
1 TTCTCAAAGTCCACGACTCAGTGGCATCTT
* * *
2621236 GTCCCAAAGTCCACGACTCAGTGGCATTTT
1 TTCTCAAAGTCCACGACTCAGTGGCATCTT
* *
2621266 TTCTTCAAAGTCTACGACTCAGTGGCATCTC
1 TTC-TCAAAGTCCACGACTCAGTGGCATCTT
* * ** *
2621297 TTCCCAAAGTCCATGACTTTGTGGCACCTT
1 TTCTCAAAGTCCACGACTCAGTGGCATCTT
2621327 TT
1 TT
2621329 TCTTTTCCAA
Statistics
Matches: 211, Mismatches: 31, Indels: 8
0.84 0.12 0.03
Matches are distributed among these distances:
30 110 0.52
31 94 0.45
32 7 0.03
ACGTcount: A:0.23, C:0.29, G:0.17, T:0.31
Consensus pattern (30 bp):
TTCTCAAAGTCCACGACTCAGTGGCATCTT
Found at i:2621275 original size:61 final size:61
Alignment explanation
Indices: 2621053--2621328 Score: 324
Period size: 61 Copynumber: 4.5 Consensus size: 61
2621043 CAAATCTCTC
* * * * *
2621053 TTCT-CAAAGTCCACGACTCAGTGGCATCTCTTCCCAAAGTCCATGGCTTAGTGGCATCTT
1 TTCTCCAAAGTCCACGACTCAGTGGCATCTTTTCTCAAAGTCCACGACTCAGTGGCATCTT
* * *
2621113 TTCTTCAAAGTCCACGACTTAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGCATCTT
1 TTCTCCAAAGTCCACGACTCAGTGGC-ATCTTTTCTCAAAGTCCACGACTCAGTGGCATCTT
* * * * *
2621175 TTCTTCAAAGTCCATGACTCAGTGGCATCTTATCCCAAAGTCCACGACTTAGTGGCATCTT
1 TTCTCCAAAGTCCACGACTCAGTGGCATCTTTTCTCAAAGTCCACGACTCAGTGGCATCTT
* * * *
2621236 GTC-CCAAAGTCCACGACTCAGTGGCATTTTTTCTTCAAAGTCTACGACTCAGTGGCATCTC
1 TTCTCCAAAGTCCACGACTCAGTGGCATCTTTTC-TCAAAGTCCACGACTCAGTGGCATCTT
* ** *
2621297 TTC-CCAAAGTCCATGACTTTGTGGCACCTTTT
1 TTCTCCAAAGTCCACGACTCAGTGGCATCTTTT
2621329 TCTTTTCCAA
Statistics
Matches: 187, Mismatches: 26, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
60 30 0.16
61 102 0.55
62 55 0.29
ACGTcount: A:0.23, C:0.29, G:0.17, T:0.31
Consensus pattern (61 bp):
TTCTCCAAAGTCCACGACTCAGTGGCATCTTTTCTCAAAGTCCACGACTCAGTGGCATCTT
Found at i:2621450 original size:34 final size:33
Alignment explanation
Indices: 2621358--2621615 Score: 189
Period size: 34 Copynumber: 8.0 Consensus size: 33
2621348 TTTGTGGCAC
* *
2621358 CCTTTTAAGTCCACAACTCCGGGGTACGT-TTTT
1 CCTTTTAAGTCCACAACTCCGTGGCAC-TCTTTT
* * *
2621391 CATTTTAAAGCCCACAACTCAGTGGCACTCTTGTT
1 CCTTTT-AAGTCCACAACTCCGTGGCACTCTT-TT
* *
2621426 CCTTTTAAGTCCATAACTCTGTGGCA--C----
1 CCTTTTAAGTCCACAACTCCGTGGCACTCTTTT
* *
2621453 ACTTTTAAGTCCAGAACTCCGTGGCACT-TTGTT
1 CCTTTTAAGTCCACAACTCCGTGGCACTCTT-TT
* *
2621486 CTTTTTAAGTCCACAACTCTGTGGCAC-CTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACTCTTTT
* * * *
2621518 CTTTTTAA-TCCACGACTCCGTGGTACCCTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACTCTTTT
* * * *
2621550 CCCTTTTAAGCCCACACCTCTGTGGCATCCCTTTTT
1 -CCTTTTAAGTCCACAACTCCGTGGCA-CTC-TTTT
*
2621586 CC-TGTAAGTCCACAACTCCGTGGCA-TCTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACTCTTT
2621616 AAGTCCAATA
Statistics
Matches: 179, Mismatches: 30, Indels: 34
0.74 0.12 0.14
Matches are distributed among these distances:
27 23 0.13
31 18 0.10
32 17 0.09
33 38 0.21
34 67 0.37
35 12 0.07
36 4 0.02
ACGTcount: A:0.19, C:0.30, G:0.15, T:0.36
Consensus pattern (33 bp):
CCTTTTAAGTCCACAACTCCGTGGCACTCTTTT
Found at i:2621458 original size:27 final size:27
Alignment explanation
Indices: 2621427--2621479 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
2621417 ACTCTTGTTC
* *
2621427 CTTTTAAGTCCATAACTCTGTGGCACA
1 CTTTTAAGTCCAGAACTCCGTGGCACA
2621454 CTTTTAAGTCCAGAACTCCGTGGCAC
1 CTTTTAAGTCCAGAACTCCGTGGCAC
2621480 TTTGTTCTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.30
Consensus pattern (27 bp):
CTTTTAAGTCCAGAACTCCGTGGCACA
Found at i:2621492 original size:95 final size:91
Alignment explanation
Indices: 2621317--2621549 Score: 252
Period size: 95 Copynumber: 2.5 Consensus size: 91
2621307 CCATGACTTT
* * *
2621317 GTGGCACCTTTTTCTTTTCCAACTCCACAACTTTGTGGCACCCTTTTAAGTCCACAACTCCGGGG
1 GTGGCACCTTTTCCTTTT--AA-TCCACAACTCTGTGGCACACTTTTAAGTCCACAACTCCGGGG
*
2621382 TACGTTTTTCATTTTAAAGCCCACAACTCA
63 CACGTTTTTCATTTT-AAGCCCACAACTCA
* * *
2621412 GTGGCACTCTTGTTCCTTTTAAGTCCATAACTCTGTGGCACACTTTTAAGTCCAGAACTCCGTGG
1 GTGGCAC-CTT-TTCCTTTTAA-TCCACAACTCTGTGGCACACTTTTAAGTCCACAACTCCGGGG
* * *
2621477 CAC-TTTGTTCTTTTTAAGTCCACAACTCT
63 CACGTTT-TTCATTTTAAGCCCACAACTCA
* * * * *
2621506 GTGGCACCTTTTCTTTTTAATCCACGACTCCGTGGTACCCTTTT
1 GTGGCACCTTTTCCTTTTAATCCACAACTCTGTGGCACACTTTT
2621550 CCCTTTTAAG
Statistics
Matches: 118, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
91 19 0.16
92 9 0.08
93 3 0.03
94 22 0.19
95 55 0.47
96 3 0.03
97 7 0.06
ACGTcount: A:0.20, C:0.29, G:0.15, T:0.36
Consensus pattern (91 bp):
GTGGCACCTTTTCCTTTTAATCCACAACTCTGTGGCACACTTTTAAGTCCACAACTCCGGGGCAC
GTTTTTCATTTTAAGCCCACAACTCA
Found at i:2621666 original size:49 final size:49
Alignment explanation
Indices: 2621609--2623836 Score: 1680
Period size: 49 Copynumber: 46.9 Consensus size: 49
2621599 AACTCCGTGG
* * *
2621609 CATCTTTAAGTCCAATATCGCTGCCCTTGAATCAGCATATTGGCACCTT
1 CATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTT
* * *
2621658 CATCTTTAAGACCGATGTCGTTGGCCTTGAATCAGCACATTGGCACCTT
1 CATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTT
* * * *
2621707 AACCATCTTTAAGTCCAATATCG-TCGGCCTTGAATCAGCATATTGCCATCTT
1 ---CATCTTTAAGACCAATGTCGCT-GGCCTTGAATCAGCATATTGGCACCTT
* * *
2621759 CATCTTTAAGTCCGATATCGCTGGCCTTGAATCAGCATATTGGCACCTT
1 CATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTT
* * * *
2621808 TATTTTTAAAACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT
1 CATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTT
* * * *
2621857 TATCTTTAAGACCAATGTCGTTGGCCTTAAATCAGCACATTGG------
1 CATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTT
* * * * *
2621900 CATCTTTAAGTCTAATATCGATGGCCTTGAATCAACATATTGGCACCTTT
1 CATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACC-TT
* * * * *
2621950 ACCATC-TTGAGTCCAATATCGCTGGTCGTGAATCAGCATATTGGCACCTT
1 --CATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTT
* * ** * *
2622000 -GTCTTTAAGACTAATGTCATTGGCCTTGAATTAGCACATTGG------
1 CATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTT
* *
2622042 CA----TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT
1 CATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTT
* * * *
2622087 -ATCTTTAAGACCAATGTCGCTAGCCTTGACTCAACACATTGG------
1 CATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTT
* * ** * *
2622129 CA----TAAGCCCAATATCATTGGCCTTCAATCACCATATTGGCACCTT
1 CATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTT
* * * ** * *
2622174 CATCTTTAAGACCGATGTTGTTGG-AATGAATCAACATATTAGCACCTT
1 CATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTT
* * * *
2622222 AACCATCTTTAAGTCCAATGTC-ATCGGCCTTGAATCAGCACATTGGCATCTT
1 ---CATCTTTAAGACCAATGTCGCT-GGCCTTGAATCAGCATATTGGCACCTT
* * * ** *
2622274 CATCTTTAA-ATTCGATATCGCTATCCTTGAATCAGCATATTAGCACCTT
1 CATCTTTAAGA-CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTT
* * * * * * *
2622323 TATCCTTAAGACCAACGTTGCTGGCCTTGAATTAGCACATTGGCATCTT
1 CATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTT
* * * ** * *
2622372 CATTTTTAAGTCCGACATCGTTGGCCTTAAATCAGCATATTGGCACCTT
1 CATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTT
* * * *
2622421 TATCTTTAAAACCAATGTTGCTGGCCTTGAATCAGCACATTGGCACCTT
1 CATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTT
* * *
2622470 TATCTTTAAGACCAATGTCGTTGGCCTTGAATCAGCATATTGGCATCTT
1 CATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTT
* * *
2622519 CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTT
1 CATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACC-TT
* * * * * *
2622569 ACCATC-TTGAGTCCAATATTGCTAGCCTTGAATCAACATATTGGCACCTT
1 --CATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTT
* *
2622619 -GTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGG------
1 CATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTT
* * *
2622661 CA----TAAGCCCAATATCGCTGGCCTTGAATCAGTATATTGGCACCTT
1 CATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTT
* *
2622706 -ATCTTTAAGACCAATGTCGCTAGCCTTGAATCAGCACATTGG------
1 CATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTT
* * * * * *
2622748 CA----TAAGCCCAATATCGCTGGCCTCGAATTAGCATATTGGTACTTT
1 CATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTT
* * * *
2622793 CATTTTTAAGACCGATGTCGTTGGCCTTGAATCAACATATTGGCACCTT
1 CATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTT
* * **
2622842 AACCATCTTTAAGTCCAATGTCGCCGGCCTTGAATCAGCATATTGGCATTTT
1 ---CATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTT
* * *
2622894 CATCTTTAAGTCCGATATCGCTGGCCTTGAATCAGCATATTGGCACCTT
1 CATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTT
* * * *
2622943 TATCTTTAAGACCAATGTCGTTGGCCTTGAATCAGCACATTGGCATCTT
1 CATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTT
* ** * *
2622992 CATCTTTAAGTCTGATATCGCTGGCCTTGAATCAGTATATTGGCACCTT
1 CATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTT
* * *
2623041 TATCTTTAAGACCAATGTCGCTGGCCTTGAATTAGCACATTGGCACCTT
1 CATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTT
* * ** * *
2623090 TATCTTTAAGACTAATGTCATTGGCCTTGAATCAGTACATTGGCA----
1 CATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTT
* * * *
2623135 C--CTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCATCTTT
1 CATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCA-CCTT
* * * * * *
2623183 ACCATC-TTGAGTCCAATATCGCTGGCCTTAAATCAGCTTATTAGCACCTT
1 --CATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTT
* * *
2623233 -GTCTTTAAGACCAATGTCGCTGGCCTTGAATCAACACATT-G-A----
1 CATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTT
* * * *
2623275 CA----TAAGCCCAATATCGCTGGCCTTGAATCAACATATTAGCACCTT
1 CATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTT
* * *
2623320 -GTCTTTAAGACCAATGTTGCTGGCCTTGAATCAGCACATTGG------
1 CATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTT
* *
2623362 CA----TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT
1 CATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTT
* * * *
2623407 TATCTTTAAGACCGATGTCGTTGGCCTTGAATCAGCACATTGGCACCTT
1 CATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTT
* * * * * * *
2623456 AACCATCTTTAAGTCCAACGTTGCCGACCTTGAATCAGCACATTGGCATCTT
1 ---CATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTT
* * * *
2623508 CATCTTTAAGTCCGATATCGCTGGTCTTGAATCAGCATATTGGCACCTT
1 CATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTT
*
2623557 TATCTTTAAGACCAATGTCG-TCGGCCTTGAATCAGC--A----CA--TT
1 CATCTTTAAGACCAATGTCGCT-GGCCTTGAATCAGCATATTGGCACCTT
* * * *
2623598 CATCTTTAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGTCACCTT
1 CATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTT
* * * *
2623647 TATCTTTAAGACCAATGTCGCTAGCCTTGAATTAGCACATTGGCACCTT
1 CATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTT
* * ** * * * *
2623696 CTTCTTTAAGTCTGATATCGTTGGCCTTGAATCAGCATATTAGCATCTTT
1 CATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCA-CCTT
* * ** *
2623746 AACAT-TCTTAAGCCCAATGTCGTTGGCCTTGTCTCAACATATTGGCA--TT
1 --CATCT-TTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTT
* * * * ** *
2623795 CTTCTTCAAGTCTAATGTCGCTGGCCAAGAATCAGCACATTG
1 CATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTG
2623837 TCATTCTTCG
Statistics
Matches: 1712, Mismatches: 343, Indels: 250
0.74 0.15 0.11
Matches are distributed among these distances:
39 187 0.11
40 1 0.00
41 33 0.02
42 1 0.00
43 74 0.04
44 2 0.00
45 5 0.00
46 1 0.00
47 39 0.02
48 203 0.12
49 838 0.49
50 17 0.01
51 129 0.08
52 182 0.11
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (49 bp):
CATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTT
Found at i:2621925 original size:43 final size:43
Alignment explanation
Indices: 2621858--2621950 Score: 114
Period size: 43 Copynumber: 2.2 Consensus size: 43
2621848 TGGCACCTTT
* * *
2621858 ATCTTTAAGACCAATGTCGTTGGCCTTAAATCAGCACATTGGC
1 ATCTTTAAGACCAATATCGATGGCCTTAAATCAACACATTGGC
* * * *
2621901 ATCTTTAAGTCTAATATCGATGGCCTTGAATCAACATATTGGC
1 ATCTTTAAGACCAATATCGATGGCCTTAAATCAACACATTGGC
*
2621944 ACCTTTA
1 ATCTTTA
2621951 CCATCTTGAG
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (43 bp):
ATCTTTAAGACCAATATCGATGGCCTTAAATCAACACATTGGC
Found at i:2622080 original size:39 final size:39
Alignment explanation
Indices: 2622020--2622169 Score: 111
Period size: 39 Copynumber: 3.6 Consensus size: 39
2622010 CTAATGTCAT
*
2622020 TGGCCTTGAATTAGCACATTGGCATAAGCCCAATATCGC
1 TGGCCTTGAATCAGCACATTGGCATAAGCCCAATATCGC
* * *
2622059 TGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGC
1 TGGCCTTGAATCAGCACATTGG---C--A----TAAGCCCAATATCGC
* * * **
2622107 TAGCCTTGACTCAACACATTGGCATAAGCCCAATATCAT
1 TGGCCTTGAATCAGCACATTGGCATAAGCCCAATATCGC
* * *
2622146 TGGCCTTCAATCACCATATTGGCA
1 TGGCCTTGAATCAGCACATTGGCA
2622170 CCTTCATCTT
Statistics
Matches: 85, Mismatches: 17, Indels: 18
0.71 0.14 0.15
Matches are distributed among these distances:
39 50 0.59
42 1 0.01
43 1 0.01
44 1 0.01
45 1 0.01
48 31 0.36
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (39 bp):
TGGCCTTGAATCAGCACATTGGCATAAGCCCAATATCGC
Found at i:2622113 original size:87 final size:87
Alignment explanation
Indices: 2621962--2622191 Score: 316
Period size: 87 Copynumber: 2.6 Consensus size: 87
2621952 CATCTTGAGT
* * * * * *
2621962 CCAATATCGCTGGTCGTGAATCAGCATATTGGCACCTTGTCTTTAAGACTAATGTCATTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCACTAGCCTT
* *
2622027 GAATTAGCACATTGGCATAAGC
66 GAATCAACACATTGGCATAAGC
*
2622049 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTAGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCACTAGCCTT
*
2622114 GACTCAACACATTGGCATAAGC
66 GAATCAACACATTGGCATAAGC
** * * *
2622136 CCAATATCATTGGCCTTCAATCACCATATTGGCACCTTCATCTTTAAGACCGATGT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-ATCTTTAAGACCAATGT
2622192 TGTTGGAATG
Statistics
Matches: 127, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
87 111 0.87
88 16 0.13
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (87 bp):
CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCACTAGCCTT
GAATCAACACATTGGCATAAGC
Found at i:2622683 original size:39 final size:39
Alignment explanation
Indices: 2622624--2622786 Score: 155
Period size: 39 Copynumber: 3.9 Consensus size: 39
2622614 ACCTTGTCTT
*
2622624 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
1 TAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA
* * *
2622663 TAAGCCCAATATCGCTGGCCTTGAATCAGTATATTGGCACCTTA
1 TAAGACCAATATCGCTGGCCTTGAATCAGCACATTGG---C--A
* *
2622707 TCTTTAAGACCAATGTCGCTAGCCTTGAATCAGCACATTGGCA
1 ----TAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA
* * * *
2622750 TAAGCCCAATATCGCTGGCCTCGAATTAGCATATTGG
1 TAAGACCAATATCGCTGGCCTTGAATCAGCACATTGG
2622787 TACTTTCATT
Statistics
Matches: 100, Mismatches: 15, Indels: 18
0.75 0.11 0.14
Matches are distributed among these distances:
39 64 0.64
42 1 0.01
43 1 0.01
44 1 0.01
45 1 0.01
48 32 0.32
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (39 bp):
TAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA
Found at i:2622732 original size:87 final size:87
Alignment explanation
Indices: 2622581--2622837 Score: 370
Period size: 87 Copynumber: 2.9 Consensus size: 87
2622571 CATCTTGAGT
* * * *
2622581 CCAATATTGCTAGCCTTGAATCAACATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTGGCCTT
2622646 GAATCAGCACATTGGCATAAGC
66 GAATCAGCACATTGGCATAAGC
* *
2622668 CCAATATCGCTGGCCTTGAATCAGTATATTGGCACCTTATCTTTAAGACCAATGTCGCTAGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTGGCCTT
2622733 GAATCAGCACATTGGCATAAGC
66 GAATCAGCACATTGGCATAAGC
* * * * * * *
2622755 CCAATATCGCTGGCCTCGAATTAGCATATTGGTACTTTCATTTTTAAGACCGATGTCGTTGGCCT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-ATCTTTAAGACCAATGTCGCTGGCCT
* *
2622820 TGAATCAACATATTGGCA
65 TGAATCAGCACATTGGCA
2622838 CCTTAACCAT
Statistics
Matches: 152, Mismatches: 17, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
87 114 0.75
88 38 0.25
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (87 bp):
CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTGGCCTT
GAATCAGCACATTGGCATAAGC
Found at i:2623297 original size:39 final size:39
Alignment explanation
Indices: 2623238--2623391 Score: 146
Period size: 39 Copynumber: 3.7 Consensus size: 39
2623228 ACCTTGTCTT
*
2623238 TAAGACCAATGTCGCTGGCCTTGAATCAACACATTGACA
1 TAAGACCAATATCGCTGGCCTTGAATCAACACATTGACA
* * *
2623277 TAAGCCCAATATCGCTGGCCTTGAATCAACATATTAGCACCTTGTCTT
1 TAAGACCAATATCGCTGGCCTTGAATCAAC-----A-CA--TTGAC-A
* * * *
2623325 TAAGACCAATGTTGCTGGCCTTGAATCAGCACATTGGCA
1 TAAGACCAATATCGCTGGCCTTGAATCAACACATTGACA
*
2623364 TAAGCCCAATATCGCTGGCCTTGAATCA
1 TAAGACCAATATCGCTGGCCTTGAATCA
2623392 GCATATTGGC
Statistics
Matches: 93, Mismatches: 13, Indels: 18
0.75 0.10 0.15
Matches are distributed among these distances:
39 53 0.57
40 4 0.04
42 2 0.02
43 1 0.01
44 1 0.01
45 2 0.02
47 4 0.04
48 26 0.28
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (39 bp):
TAAGACCAATATCGCTGGCCTTGAATCAACACATTGACA
Found at i:2623342 original size:87 final size:87
Alignment explanation
Indices: 2623195--2623448 Score: 409
Period size: 87 Copynumber: 2.9 Consensus size: 87
2623185 CATCTTGAGT
* *
2623195 CCAATATCGCTGGCCTTAAATCAGCTTATTAGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTAGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTT
*
2623260 GAATCAACACATTGACATAAGC
66 GAATCAGCACATTGACATAAGC
* *
2623282 CCAATATCGCTGGCCTTGAATCAACATATTAGCACCTTGTCTTTAAGACCAATGTTGCTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTAGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTT
*
2623347 GAATCAGCACATTGGCATAAGC
66 GAATCAGCACATTGACATAAGC
* * * *
2623369 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCGATGTCGTTGGCCT
1 CCAATATCGCTGGCCTTGAATCAGCATATTAGCACC-TTGTCTTTAAGACCAATGTCGCTGGCCT
2623434 TGAATCAGCACATTG
65 TGAATCAGCACATTG
2623449 GCACCTTAAC
Statistics
Matches: 154, Mismatches: 12, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
87 115 0.75
88 39 0.25
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.30
Consensus pattern (87 bp):
CCAATATCGCTGGCCTTGAATCAGCATATTAGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTT
GAATCAGCACATTGACATAAGC
Found at i:2623453 original size:614 final size:614
Alignment explanation
Indices: 2621609--2623747 Score: 3159
Period size: 614 Copynumber: 3.5 Consensus size: 614
2621599 AACTCCGTGG
* * * * * *
2621609 CATCTTTAAGTCCAATATCGCTGCCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCGAT
1 CATCTTTAAGTCCAATGTCGCCGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCGAT
* * * * * *
2621674 GTCGTTGGCCTTGAATCAGCACATTGGCACCTTAACCATCTTTAAGTCCAATATCGTCGGCCTTG
66 ATCGCTGGCCTTGAATCAGCATATTGGCACCTT---TATCTTTAAGACCAATGTCGTCGGCCTTG
* *
2621739 AATCAGCATATTGCCATCTTCATCTTTAAGTCCGATATCGCTGGCCTTGAATCAGCATATTGGCA
128 AATCAGCACATTGGCATCTTCATCTTTAAGTCCGATATCGCTGGCCTTGAATCAGCATATTGGCA
*
2621804 CCTTTATTTTTAAAACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGAC
193 CCTTTATCTTTAAAACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGAC
* * * *
2621869 CAATGTCGTTGGCCTTAAATCAGCACATTGGCATCTTTAAGTCTAATATCGATGGCCTTGAATCA
258 CAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCA
* * *
2621934 ACATATTGGCACCTTTACCATCTTGAGTCCAATATCGCTGGTCGTGAATCAGCATATTGGCACCT
323 GCATATTGGCACCTTTACCATCTTGAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCT
* ** *
2621999 TGTCTTTAAGACTAATGTCATTGGCCTTGAATTAGCACATTGGCATAAGCCCAATATCGCTGGCC
388 TGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATAAGCCCAATATCGCTGGCC
* *
2622064 TTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTAGCCTTGACTCAACACATTGG
453 TTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTAGCCTTGAATCAGCACATTGG
** * * * *
2622129 CATAAGCCCAATATCATTGGCCTTCAATCACCATATTGGCACCTTCATCTTTAAGACCGATGTTG
518 CATAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCGATGTCG
** *
2622194 TTGG-AATGAATCAACATATTAGCACCTTAAC
583 TTGGCCTTGAATCAACATATTGGCACCTTAAC
** * *
2622225 CATCTTTAAGTCCAATGTCATCGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAATTCGAT
1 CATCTTTAAGTCCAATGTCGCCGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCGAT
** * * * *
2622290 ATCGCTATCCTTGAATCAGCATATTAGCACCTTTATCCTTAAGACCAACGTTG-CTGGCCTTGAA
66 ATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTCGTC-GGCCTTGAA
* * * * *
2622354 TTAGCACATTGGCATCTTCATTTTTAAGTCCGACATCGTTGGCCTTAAATCAGCATATTGGCACC
130 TCAGCACATTGGCATCTTCATCTTTAAGTCCGATATCGCTGGCCTTGAATCAGCATATTGGCACC
*
2622419 TTTATCTTTAAAACCAATGTTGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGACCA
195 TTTATCTTTAAAACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGACCA
*
2622484 ATGTCGTTGGCCTTGAATCAGCATATTGGCATCTTCACCTTTAAGTCCAATATCGCTGGCCTTGA
260 ATGTCGTTGGCCTTGAATCAGCACATTGG------CACCTTTAAGTCCAATATCGCTGGCCTTGA
* * *
2622549 ATCAGCATATTGGCACCTTTACCATCTTGAGTCCAATATTGCTAGCCTTGAATCAACATATTGGC
319 ATCAGCATATTGGCACCTTTACCATCTTGAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC
2622614 ACCTTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATAAGCCCAATATCGCT
384 ACCTTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATAAGCCCAATATCGCT
*
2622679 GGCCTTGAATCAGTATATTGGCACCTTATCTTTAAGACCAATGTCGCTAGCCTTGAATCAGCACA
449 GGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTAGCCTTGAATCAGCACA
* * * *
2622744 TTGGCATAAGCCCAATATCGCTGGCCTCGAATTAGCATATTGGTA-CTTTCATTTTTAAGACCGA
514 TTGGCATAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTT-ATCTTTAAGACCGA
2622808 TGTCGTTGGCCTTGAATCAACATATTGGCACCTTAAC
578 TGTCGTTGGCCTTGAATCAACATATTGGCACCTTAAC
* *
2622845 CATCTTTAAGTCCAATGTCGCCGGCCTTGAATCAGCATATTGGCATTTTCATCTTTAAGTCCGAT
1 CATCTTTAAGTCCAATGTCGCCGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCGAT
*
2622910 ATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTCGTTGGCCTTGAAT
66 ATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTCGTCGGCCTTGAAT
* *
2622975 CAGCACATTGGCATCTTCATCTTTAAGTCTGATATCGCTGGCCTTGAATCAGTATATTGGCACCT
131 CAGCACATTGGCATCTTCATCTTTAAGTCCGATATCGCTGGCCTTGAATCAGCATATTGGCACCT
* * *
2623040 TTATCTTTAAGACCAATGTCGCTGGCCTTGAATTAGCACATTGGCACCTTTATCTTTAAGACTAA
196 TTATCTTTAAAACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGACCAA
* * *
2623105 TGTCATTGGCCTTGAATCAGTACATTGGCACCTTTAAGTCCAATATCGCTAGCCTTGAATCAGCA
261 TGTCGTTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCA
* * * *
2623170 TATTGGCATCTTTACCATCTTGAGTCCAATATCGCTGGCCTTAAATCAGCTTATTAGCACCTTGT
326 TATTGGCACCTTTACCATCTTGAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGT
* *
2623235 CTTTAAGACCAATGTCGCTGGCCTTGAATCAACACATTGACATAAGCCCAATATCGCTGGCCTTG
391 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATAAGCCCAATATCGCTGGCCTTG
* * * * *
2623300 AATCAACATATTAGCACCTTGTCTTTAAGACCAATGTTGCTGGCCTTGAATCAGCACATTGGCAT
456 AATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTAGCCTTGAATCAGCACATTGGCAT
2623365 AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCGATGTCGTTG
521 AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCGATGTCGTTG
* *
2623430 GCCTTGAATCAGCACATTGGCACCTTAAC
586 GCCTTGAATCAACATATTGGCACCTTAAC
* * *
2623459 CATCTTTAAGTCCAACGTTGCCGACCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCGAT
1 CATCTTTAAGTCCAATGTCGCCGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCGAT
*
2623524 ATCGCTGGTCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTCGTCGGCCTTGAAT
66 ATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTCGTCGGCCTTGAAT
** *
2623589 CAG--CA----CA--TTCATCTTTAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGTCACCT
131 CAGCACATTGGCATCTTCATCTTTAAGTCCGATATCGCTGGCCTTGAATCAGCATATTGGCACCT
* * * * **
2623646 TTATCTTTAAGACCAATGTCGCTAGCCTTGAATTAGCACATTGGCACCTTCT-TCTTTAAGTCTG
196 TTATCTTTAAAACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT-TATCTTTAAGACCA
* * * *
2623710 ATATCGTTGGCCTTGAATCAGCATATTAGCATCTTTAA
260 ATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTTAA
2623748 CATTCTTAAG
Statistics
Matches: 1381, Mismatches: 130, Indels: 34
0.89 0.08 0.02
Matches are distributed among these distances:
606 138 0.10
607 1 0.00
608 2 0.00
612 3 0.00
613 171 0.12
614 425 0.31
615 4 0.00
616 82 0.06
618 3 0.00
619 268 0.19
620 284 0.21
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (614 bp):
CATCTTTAAGTCCAATGTCGCCGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCGAT
ATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTCGTCGGCCTTGAAT
CAGCACATTGGCATCTTCATCTTTAAGTCCGATATCGCTGGCCTTGAATCAGCATATTGGCACCT
TTATCTTTAAAACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGACCAA
TGTCGTTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCA
TATTGGCACCTTTACCATCTTGAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGT
CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATAAGCCCAATATCGCTGGCCTTG
AATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTAGCCTTGAATCAGCACATTGGCAT
AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCGATGTCGTTG
GCCTTGAATCAACATATTGGCACCTTAAC
Found at i:2623722 original size:139 final size:140
Alignment explanation
Indices: 2623364--2623747 Score: 385
Period size: 139 Copynumber: 2.7 Consensus size: 140
2623354 CACATTGGCA
* * * * * *
2623364 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCGATGTCGTT
1 TAAGACCAATATCGCTAGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGACCAATATCGTC
* ** * * *
2623429 GGCCTTGAATCAGCACATTGGCACCTTAACCATCTTTAAGTCCAACGTTGCCGACCTTGAATCAG
66 GGCCTTGAATCAG--CA----CA--TT-A-CATCTTTAAGTCTAATATCGCTGGCCTTGAATCAG
*
2623494 CACATTGGCATCTTCATCTT
121 CACATTGGCACCTTCATCTT
* * * * * *
2623514 TAAGTCCGATATCGCTGGTCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTCGTC
1 TAAGACCAATATCGCTAGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGACCAATATCGTC
* *
2623579 GGCCTTGAATCAGCACATT-CATCTTTAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGTCA
66 GGCCTTGAATCAGCACATTACATCTTTAAGTCTAATATCGCTGGCCTTGAATCAGCACATTGGCA
*
2623643 CCTTTATCTT
131 CCTTCATCTT
* * * **
2623653 TAAGACCAATGTCGCTAGCCTTGAATTAGCACATTGGCACCTTCT-TCTTTAAGTCTGATATCGT
1 TAAGACCAATATCGCTAGCCTTGAATCAGCACATTGGCACCTT-TATCTTTAAGACCAATATCGT
* *
2623717 TGGCCTTGAATCAGCATATTAGCATCTTTAA
65 CGGCCTTGAATCAGCACATTA-CATCTTTAA
2623748 CATTCTTAAG
Statistics
Matches: 203, Mismatches: 28, Indels: 15
0.83 0.11 0.06
Matches are distributed among these distances:
139 114 0.56
140 1 0.00
141 9 0.04
142 2 0.01
144 2 0.01
148 2 0.01
150 73 0.36
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (140 bp):
TAAGACCAATATCGCTAGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGACCAATATCGTC
GGCCTTGAATCAGCACATTACATCTTTAAGTCTAATATCGCTGGCCTTGAATCAGCACATTGGCA
CCTTCATCTT
Found at i:2623789 original size:240 final size:234
Alignment explanation
Indices: 2622440--2623835 Score: 1145
Period size: 240 Copynumber: 5.9 Consensus size: 234
2622430 AACCAATGTT
* * *
2622440 GCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGACCAATGTCGTTGGCCTTGAATCAG
1 GCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTCGCTAGCCTTGAATCAG
* * * ** * * * * *
2622505 CATATTGGCATCTT-CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTT
66 CACATTGGCACCTTACATCTTTAAGTCCAACGTTGC-GACCTTGAATCAGCACATTAGCATC-TT
* * * * *
2622569 ACCATC-TTGAGTCCAATATTGCTAGCCTTGAATCAACATATTGGCACCTTGTCTTTAAGACCAA
129 --CATCTTTAAGCCCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTATCTTTAAGACCAA
*
2622633 TGTCGCTGGCCTTGAATCAGCACATTGGCATAAGCCCAATATC
192 TGTCGCTGGCCTTGAATCAGCACATTAGCATAAGCCCAATATC
*
2622676 GCTGGCCTTGAATCAGTATATTGGCACC-TTATCTTTAAGACCAATGTCGCTAGCCTTGAATCAG
1 GCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTCGCTAGCCTTGAATCAG
* ** * * * * * * *
2622740 CACATTGGCA---TA-AGC-CCAA-T--ATCGCTG-G-CCTCGAATTAGCATATTGGTA-CTTTC
66 CACATTGGCACCTTACATCTTTAAGTCCAACGTTGCGACCTTGAATCAGCACATTAGCATC-TTC
* * * * * *
2622794 ATTTTTAAGACCGATGTCGTTGGCCTTGAATCAACATATTGGCACCTTAACCATCTTTAAGTCCA
130 ATCTTTAAGCCCAATATCGCTGGCCTTGAATCAACATATTGGCACCTT----ATCTTTAAGACCA
* * * * *
2622859 ATGTCGCCGGCCTTGAATCAGCATATTGGCATTTTCATCTTTAAGTCCGATATC
191 ATGTCGCTGGCCTTGAATCAGC--A----CA--TT-AGC-ATAAGCCCAATATC
* *
2622913 GCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTCGTTGGCCTTGAATCAG
1 GCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTCGCTAGCCTTGAATCAG
* * * * * * *
2622978 CACATTGGCATCTT-CATCTTTAAGTCTGATATCGCTG-G-CCTTGAATCAGTATATTGGCACCT
66 CACATTGGCACCTTACATCTTTAAGTC-CA-A-CGTTGCGACCTTGAATCAGCACATTAGCATCT
* * * * * * *
2623040 TTATCTTTAAGACCAATGTCGCTGGCCTTGAATTAGCACATTGGCACCTTTATCTTTAAGACTAA
128 TCATCTTTAAGCCCAATATCGCTGGCCTTGAATCAACATATTGGCACC-TTATCTTTAAGACCAA
** * * *
2623105 TGTCATTGGCCTTGAATCAGTACATTGGCACCTTTAAGTCCAATATC
192 TGTCGCTGGCCTTGAATCAGCACATTAGCA----TAAGCCCAATATC
* * * * * * * *
2623152 GCTAGCCTTGAATCAGCATATTGGCATCTTTACCATCTTGAGTCCAATATCGCTGGCCTTAAATC
1 GCTGGCCTTGAATCAGCATATTGGCACCTTTATC-T-TTAAGACCAATGTCGCTAGCCTTGAATC
** * * * * * * *
2623217 AGCTTATTAGCACCTT--GTCTTTAAGACCAATGTCGCTGGCCTTGAATCAACACATT-G-A---
64 AGCACATTGGCACCTTACATCTTTAAGTCCAACGTTGC-GACCTTGAATCAGCACATTAGCATCT
* *
2623275 -CA----TAAGCCCAATATCGCTGGCCTTGAATCAACATATTAGCACCTTGTCTTTAAGACCAAT
128 TCATCTTTAAGCCCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTATCTTTAAGACCAAT
* *
2623335 GTTGCTGGCCTTGAATCAGCACATTGGCATAAGCCCAATATC
193 GTCGCTGGCCTTGAATCAGCACATTAGCATAAGCCCAATATC
* * *
2623377 GCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCGATGTCGTTGGCCTTGAATCAG
1 GCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTCGCTAGCCTTGAATCAG
*
2623442 CACATTGGCACCTTAACCATCTTTAAGTCCAACGTTGCCGACCTTGAATCAGCACATTGGCATCT
66 CACATTGGCACCTT-A-CATCTTTAAGTCCAACGTTG-CGACCTTGAATCAGCACATTAGCATCT
* * * *
2623507 TCATCTTTAAGTCCGATATCGCTGGTCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAA
128 TCATCTTTAAGCCCAATATCGCTGGCCTTGAATCAACATATTGGCACC-TTATCTTTAAGACCAA
* * * *
2623572 TGTCG-TCGGCCTTGAATCAGCACATTCATCTTTAAGTCTAATATC
192 TGTCGCT-GGCCTTGAATCAGCACATT-AGC-ATAAGCCCAATATC
* *
2623617 GCTGGCCTTGAATCAGCATATTGTCACCTTTATCTTTAAGACCAATGTCGCTAGCCTTGAATTAG
1 GCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTCGCTAGCCTTGAATCAG
* * *
2623682 CACATTGGCACCTT-CTTCTTTAAGTCTGATATCGTTG-G-CCTTGAATCAGCATATTAGCATCT
66 CACATTGGCACCTTACATCTTTAAGTC-CA-A-CGTTGCGACCTTGAATCAGCACATTAGCATC-
* * ** * * *
2623744 TTAACAT-TCTTAAGCCCAATGTCGTTGGCCTTGTCTCAACATATTGGCA--TTCTTCTTCAAGT
127 TT--CATCT-TTAAGCCCAATATCGCTGGCCTTGAATCAACATATTGGCACCTT-ATCTTTAAGA
* **
2623806 CTAATGTCGCTGGCCAAGAATCAGCACATT
188 CCAATGTCGCTGGCCTTGAATCAGCACATT
2623836 GTCATTCTTC
Statistics
Matches: 945, Mismatches: 148, Indels: 132
0.77 0.12 0.11
Matches are distributed among these distances:
222 3 0.00
223 72 0.08
224 5 0.01
225 61 0.06
226 1 0.00
227 64 0.07
228 4 0.00
229 42 0.04
230 36 0.04
231 2 0.00
232 3 0.00
233 4 0.00
234 1 0.00
235 45 0.05
236 28 0.03
237 113 0.12
238 120 0.13
239 52 0.06
240 149 0.16
241 38 0.04
242 2 0.00
243 2 0.00
245 29 0.03
246 1 0.00
248 65 0.07
249 3 0.00
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (234 bp):
GCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTCGCTAGCCTTGAATCAG
CACATTGGCACCTTACATCTTTAAGTCCAACGTTGCGACCTTGAATCAGCACATTAGCATCTTCA
TCTTTAAGCCCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTATCTTTAAGACCAATGTC
GCTGGCCTTGAATCAGCACATTAGCATAAGCCCAATATC
Found at i:2624616 original size:21 final size:19
Alignment explanation
Indices: 2624590--2624643 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
2624580 TTCAACAATT
2624590 TGTATCGATACAAATAGTAAA
1 TGTATCGATACAAA-AGT-AA
* **
2624611 TGTATCGATACATAAGTGT
1 TGTATCGATACAAAAGTAA
2624630 TGTATCGATACAAA
1 TGTATCGATACAAA
2624644 GCTACCCTGC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 13 0.45
20 3 0.10
21 13 0.45
ACGTcount: A:0.41, C:0.11, G:0.17, T:0.31
Consensus pattern (19 bp):
TGTATCGATACAAAAGTAA
Found at i:2624707 original size:13 final size:13
Alignment explanation
Indices: 2624689--2624713 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2624679 CATTATTCAA
2624689 TGTATCGATACAC
1 TGTATCGATACAC
2624702 TGTATCGATACA
1 TGTATCGATACA
2624714 TTGATCTTTG
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:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:2624711 original size:33 final size:33
Alignment explanation
Indices: 2624669--2624733 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
2624659 GCCAAGGAAA
2624669 TGTATCGATACATT-ATTCAATGTATCGATACAC
1 TGTATCGATACATTGA-TCAATGTATCGATACAC
**
2624702 TGTATCGATACATTGATCTTTGTATCGATACA
1 TGTATCGATACATTGATCAATGTATCGATACA
2624734 TCTGAGAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (33 bp):
TGTATCGATACATTGATCAATGTATCGATACAC
Found at i:2627924 original size:33 final size:33
Alignment explanation
Indices: 2627887--2627955 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
2627877 CCGTTGCAAG
*
2627887 CAATGTATCGATACCATT-CATCATGTATCGATA
1 CAATGTATCGATA-CATTGCACCATGTATCGATA
* *
2627920 CAATGTATCGATACATTGTACCATGTATTGATA
1 CAATGTATCGATACATTGCACCATGTATCGATA
2627953 CAA
1 CAA
2627956 ACAGTGGTAG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
32 4 0.12
33 28 0.88
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.33
Consensus pattern (33 bp):
CAATGTATCGATACATTGCACCATGTATCGATA
Found at i:2627927 original size:13 final size:13
Alignment explanation
Indices: 2627909--2627939 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
2627899 ACCATTCATC
2627909 ATGTATCGATACA
1 ATGTATCGATACA
2627922 ATGTATCGATACA
1 ATGTATCGATACA
*
2627935 TTGTA
1 ATGTA
2627940 CCATGTATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2628041 original size:13 final size:13
Alignment explanation
Indices: 2628023--2628048 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2628013 TACAATGAAT
2628023 ATGTATCGATACA
1 ATGTATCGATACA
2628036 ATGTATCGATACA
1 ATGTATCGATACA
2628049 TCTAGGTGTG
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:2630521 original size:13 final size:13
Alignment explanation
Indices: 2630503--2630538 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
2630493 TAACCCATGC
2630503 ATCGATACAATAT
1 ATCGATACAATAT
*
2630516 ATCGATACAATGT
1 ATCGATACAATAT
2630529 ATCGATACAA
1 ATCGATACAA
2630539 GAAAAGTTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.44, C:0.17, G:0.11, T:0.28
Consensus pattern (13 bp):
ATCGATACAATAT
Found at i:2630551 original size:20 final size:20
Alignment explanation
Indices: 2630526--2630623 Score: 98
Period size: 20 Copynumber: 5.6 Consensus size: 20
2630516 ATCGATACAA
2630526 TGTATCGATACAAGAAAAGT
1 TGTATCGATACAAGAAAAGT
2630546 TGTATCGATAC-----AA--
1 TGTATCGATACAAGAAAAGT
2630559 TGTATCGATACAAGAAAAGT
1 TGTATCGATACAAGAAAAGT
2630579 TGTATCGATAC-----AA--
1 TGTATCGATACAAGAAAAGT
2630592 TGTATCGATACAAGAAAAGT
1 TGTATCGATACAAGAAAAGT
2630612 TGTATCGATACA
1 TGTATCGATACA
2630624 TCTGGGTTTT
Statistics
Matches: 64, Mismatches: 0, Indels: 28
0.70 0.00 0.30
Matches are distributed among these distances:
13 22 0.34
15 4 0.06
18 4 0.06
20 34 0.53
ACGTcount: A:0.42, C:0.12, G:0.18, T:0.28
Consensus pattern (20 bp):
TGTATCGATACAAGAAAAGT
Found at i:2630557 original size:33 final size:33
Alignment explanation
Indices: 2630515--2630623 Score: 218
Period size: 33 Copynumber: 3.3 Consensus size: 33
2630505 CGATACAATA
2630515 TATCGATACAATGTATCGATACAAGAAAAGTTG
1 TATCGATACAATGTATCGATACAAGAAAAGTTG
2630548 TATCGATACAATGTATCGATACAAGAAAAGTTG
1 TATCGATACAATGTATCGATACAAGAAAAGTTG
2630581 TATCGATACAATGTATCGATACAAGAAAAGTTG
1 TATCGATACAATGTATCGATACAAGAAAAGTTG
2630614 TATCGATACA
1 TATCGATACA
2630624 TCTGGGTTTT
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 76 1.00
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.28
Consensus pattern (33 bp):
TATCGATACAATGTATCGATACAAGAAAAGTTG
Found at i:2630564 original size:13 final size:13
Alignment explanation
Indices: 2630546--2630604 Score: 55
Period size: 13 Copynumber: 4.0 Consensus size: 13
2630536 CAAGAAAAGT
2630546 TGTATCGATACAA
1 TGTATCGATACAA
2630559 TGTATCGATACAAGAAAA
1 TGTATCGATAC-----AA
2630577 GTTGTATCGATACAA
1 --TGTATCGATACAA
2630592 TGTATCGATACAA
1 TGTATCGATACAA
2630605 GAAAAGTTGT
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 24 0.62
15 2 0.05
18 2 0.05
20 11 0.28
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.29
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2637255 original size:13 final size:13
Alignment explanation
Indices: 2637237--2637272 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
2637227 TAACCCATGC
2637237 ATCGATACAATAT
1 ATCGATACAATAT
*
2637250 ATCGATACAATGT
1 ATCGATACAATAT
2637263 ATCGATACAA
1 ATCGATACAA
2637273 GAAAAGTTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.44, C:0.17, G:0.11, T:0.28
Consensus pattern (13 bp):
ATCGATACAATAT
Found at i:2637285 original size:20 final size:20
Alignment explanation
Indices: 2637260--2637357 Score: 98
Period size: 20 Copynumber: 5.6 Consensus size: 20
2637250 ATCGATACAA
2637260 TGTATCGATACAAGAAAAGT
1 TGTATCGATACAAGAAAAGT
2637280 TGTATCGATAC-----AA--
1 TGTATCGATACAAGAAAAGT
2637293 TGTATCGATACAAGAAAAGT
1 TGTATCGATACAAGAAAAGT
2637313 TGTATCGATAC-----AA--
1 TGTATCGATACAAGAAAAGT
2637326 TGTATCGATACAAGAAAAGT
1 TGTATCGATACAAGAAAAGT
2637346 TGTATCGATACA
1 TGTATCGATACA
2637358 TCTGGGTTTT
Statistics
Matches: 64, Mismatches: 0, Indels: 28
0.70 0.00 0.30
Matches are distributed among these distances:
13 22 0.34
15 4 0.06
18 4 0.06
20 34 0.53
ACGTcount: A:0.42, C:0.12, G:0.18, T:0.28
Consensus pattern (20 bp):
TGTATCGATACAAGAAAAGT
Found at i:2637291 original size:33 final size:33
Alignment explanation
Indices: 2637249--2637357 Score: 218
Period size: 33 Copynumber: 3.3 Consensus size: 33
2637239 CGATACAATA
2637249 TATCGATACAATGTATCGATACAAGAAAAGTTG
1 TATCGATACAATGTATCGATACAAGAAAAGTTG
2637282 TATCGATACAATGTATCGATACAAGAAAAGTTG
1 TATCGATACAATGTATCGATACAAGAAAAGTTG
2637315 TATCGATACAATGTATCGATACAAGAAAAGTTG
1 TATCGATACAATGTATCGATACAAGAAAAGTTG
2637348 TATCGATACA
1 TATCGATACA
2637358 TCTGGGTTTT
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 76 1.00
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.28
Consensus pattern (33 bp):
TATCGATACAATGTATCGATACAAGAAAAGTTG
Found at i:2637298 original size:13 final size:13
Alignment explanation
Indices: 2637280--2637338 Score: 55
Period size: 13 Copynumber: 4.0 Consensus size: 13
2637270 CAAGAAAAGT
2637280 TGTATCGATACAA
1 TGTATCGATACAA
2637293 TGTATCGATACAAGAAAA
1 TGTATCGATAC-----AA
2637311 GTTGTATCGATACAA
1 --TGTATCGATACAA
2637326 TGTATCGATACAA
1 TGTATCGATACAA
2637339 GAAAAGTTGT
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 24 0.62
15 2 0.05
18 2 0.05
20 11 0.28
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.29
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2643989 original size:13 final size:13
Alignment explanation
Indices: 2643971--2644006 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
2643961 TAACCCATGC
2643971 ATCGATACAATAT
1 ATCGATACAATAT
*
2643984 ATCGATACAATGT
1 ATCGATACAATAT
2643997 ATCGATACAA
1 ATCGATACAA
2644007 GAAAAGTTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.44, C:0.17, G:0.11, T:0.28
Consensus pattern (13 bp):
ATCGATACAATAT
Found at i:2644019 original size:20 final size:20
Alignment explanation
Indices: 2643994--2644091 Score: 98
Period size: 20 Copynumber: 5.6 Consensus size: 20
2643984 ATCGATACAA
2643994 TGTATCGATACAAGAAAAGT
1 TGTATCGATACAAGAAAAGT
2644014 TGTATCGATAC-----AA--
1 TGTATCGATACAAGAAAAGT
2644027 TGTATCGATACAAGAAAAGT
1 TGTATCGATACAAGAAAAGT
2644047 TGTATCGATAC-----AA--
1 TGTATCGATACAAGAAAAGT
2644060 TGTATCGATACAAGAAAAGT
1 TGTATCGATACAAGAAAAGT
2644080 TGTATCGATACA
1 TGTATCGATACA
2644092 TCTGGGTTTT
Statistics
Matches: 64, Mismatches: 0, Indels: 28
0.70 0.00 0.30
Matches are distributed among these distances:
13 22 0.34
15 4 0.06
18 4 0.06
20 34 0.53
ACGTcount: A:0.42, C:0.12, G:0.18, T:0.28
Consensus pattern (20 bp):
TGTATCGATACAAGAAAAGT
Found at i:2644025 original size:33 final size:33
Alignment explanation
Indices: 2643983--2644091 Score: 218
Period size: 33 Copynumber: 3.3 Consensus size: 33
2643973 CGATACAATA
2643983 TATCGATACAATGTATCGATACAAGAAAAGTTG
1 TATCGATACAATGTATCGATACAAGAAAAGTTG
2644016 TATCGATACAATGTATCGATACAAGAAAAGTTG
1 TATCGATACAATGTATCGATACAAGAAAAGTTG
2644049 TATCGATACAATGTATCGATACAAGAAAAGTTG
1 TATCGATACAATGTATCGATACAAGAAAAGTTG
2644082 TATCGATACA
1 TATCGATACA
2644092 TCTGGGTTTT
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 76 1.00
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.28
Consensus pattern (33 bp):
TATCGATACAATGTATCGATACAAGAAAAGTTG
Found at i:2644032 original size:13 final size:13
Alignment explanation
Indices: 2644014--2644072 Score: 55
Period size: 13 Copynumber: 4.0 Consensus size: 13
2644004 CAAGAAAAGT
2644014 TGTATCGATACAA
1 TGTATCGATACAA
2644027 TGTATCGATACAAGAAAA
1 TGTATCGATAC-----AA
2644045 GTTGTATCGATACAA
1 --TGTATCGATACAA
2644060 TGTATCGATACAA
1 TGTATCGATACAA
2644073 GAAAAGTTGT
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 24 0.62
15 2 0.05
18 2 0.05
20 11 0.28
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.29
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2650259 original size:33 final size:32
Alignment explanation
Indices: 2650219--2650287 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 32
2650209 CCGTTACAAG
*
2650219 CAATGTATCGATACAATTCAT-CATGTATCGATA
1 CAATGTATCAATAC-ATT-ATACATGTATCGATA
2650252 CAATGTATCAATACATTATACCATGTATCGATA
1 CAATGTATCAATACATTATA-CATGTATCGATA
2650285 CAA
1 CAA
2650288 ACAGTGGTAG
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
31 2 0.06
32 3 0.09
33 28 0.85
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (32 bp):
CAATGTATCAATACATTATACATGTATCGATA
Found at i:2650272 original size:20 final size:20
Alignment explanation
Indices: 2650249--2650286 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2650239 TCATGTATCG
2650249 ATACAATGTATCAATACATT
1 ATACAATGTATCAATACATT
* *
2650269 ATACCATGTATCGATACA
1 ATACAATGTATCAATACA
2650287 AACAGTGGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.32
Consensus pattern (20 bp):
ATACAATGTATCAATACATT
Found at i:2650361 original size:19 final size:19
Alignment explanation
Indices: 2650317--2650388 Score: 81
Period size: 20 Copynumber: 3.7 Consensus size: 19
2650307 TGCCAATTTC
***
2650317 ATGTATCGATACAATTGTCC
1 ATGTATCGATACAA-TGAAT
2650337 ATGTATCGATACAATGAAT
1 ATGTATCGATACAATGAAT
* *
2650356 ATGTATCGATACAAAGCAT
1 ATGTATCGATACAATGAAT
2650375 AATGTATCGATACA
1 -ATGTATCGATACA
2650389 TCTGGGTGTG
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
19 19 0.41
20 27 0.59
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.31
Consensus pattern (19 bp):
ATGTATCGATACAATGAAT
Found at i:2654934 original size:23 final size:23
Alignment explanation
Indices: 2654890--2654934 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
2654880 ATATTCAACC
*
2654890 TTAGGGTACAATCTCTTAAGAAT
1 TTAGGGTACAATCTCTCAAGAAT
*
2654913 TTAGGGTATAAT-TCTCAGAGAA
1 TTAGGGTACAATCTCTCA-AGAA
2654935 ATGAAGAGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.33
Consensus pattern (23 bp):
TTAGGGTACAATCTCTCAAGAAT
Found at i:2660359 original size:13 final size:13
Alignment explanation
Indices: 2660318--2660366 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 13
2660308 TCGTTACAAG
2660318 CAATGTATCGATA
1 CAATGTATCGATA
2660331 CAAT-T-TC-AT-
1 CAATGTATCGATA
*
2660340 C-ATGTATTGATA
1 CAATGTATCGATA
2660352 CAATGTATCGATA
1 CAATGTATCGATA
2660365 CA
1 CA
2660367 TTGTCCCATG
Statistics
Matches: 29, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
8 2 0.07
9 2 0.07
10 3 0.10
11 4 0.14
12 2 0.07
13 16 0.55
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:2660359 original size:34 final size:33
Alignment explanation
Indices: 2660318--2660387 Score: 97
Period size: 33 Copynumber: 2.1 Consensus size: 33
2660308 TCGTTACAAG
* *
2660318 CAATGTATCGATACAATT-TCATCATGTATTGATA
1 CAATGTATCGATAC-ATTGTC-CCATGTATCGATA
2660352 CAATGTATCGATACATTGTCCCATGTATCGATA
1 CAATGTATCGATACATTGTCCCATGTATCGATA
2660385 CAA
1 CAA
2660388 ACAGTGGTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
33 17 0.52
34 16 0.48
ACGTcount: A:0.34, C:0.19, G:0.13, T:0.34
Consensus pattern (33 bp):
CAATGTATCGATACATTGTCCCATGTATCGATA
Found at i:2661387 original size:157 final size:156
Alignment explanation
Indices: 2661067--2661778 Score: 763
Period size: 157 Copynumber: 4.5 Consensus size: 156
2661057 AAAGTGTACC
* * * * *
2661067 ATTTAGGATAGGTTCATCCCATTTATGATCTTTTTTTAGTCATTTAGGGTTACTGGGATACTTTT
1 ATTTAGGATAGGTTCATCCCATTTATGATCTTTTTTAAGTCTTTTAGGGTTACCGAGATACTTTC
* * ** *
2661132 ACGTCGAAGGTATACCCATAAGGGCATTTTCATAATTTTTCTAGAACTAAGTCCTAATTTGTCAC
66 ACGTC-AAAGTATACCCATAGGGGCATTTTCATAATTTTTCTAGAACTAAGTCCTAGGTTGTCAT
* *
2661197 CAAGTTGCTTTTATGCCAAAGGTGGGT
130 CAGGATGCTTTTATGCCAAAGGTGGGT
* *
2661224 ATTTAGGATAGGTTCATCCTATTTATGATCCCTTTTTAAGTCTTTTAGGGTTACCGAGATACTTT
1 ATTTAGGATAGGTTCATCCCATTTATGAT-CTTTTTTAAGTCTTTTAGGGTTACCGAGATACTTT
* * * * *
2661289 CACGTCAACAGTATACTCATACGGGTATTTTCGA-AATTTTCCTAGAACTAAGTCCTAGTTTGTC
65 CACGTCAA-AGTATACCCATAGGGGCATTTTC-ATAATTTTTCTAGAACTAAGTCCTAGGTTGTC
* *
2661353 A-CTGGATGCTTTTATGCCAAATGTGGGT
128 ATCAGGATGCTTTTATGCCAAAGGTGGGT
* ** *
2661381 ATTTAGGATA-GTTCATCCCATTTATGATCTTTTTTAAGTCTTTTAGAGTTATTGAGATACTTTT
1 ATTTAGGATAGGTTCATCCCATTTATGATCTTTTTTAAGTCTTTTAGGGTTACCGAGATACTTTC
* * * ** *
2661445 ATGCCCAAGGTATACCCATAGGGGTGTTTTCATAATTTTTCTA-AAATCAAG-CCTTAGGTTGTC
66 ACG-TCAAAGTATACCCATAGGGGCATTTTCATAATTTTTCTAGAACT-AAGTCC-TAGGTTGTC
* * *
2661508 ATCGGGATGCTTTTATGCCAAAGGTTGGC
128 ATCAGGATGCTTTTATGCCAAAGGTGGGT
* * * *
2661537 ATTTAGGATAGGTTTATCCCATTTATGATCTTTTTTTAAGTTTTTTAGGGTTATCGTGATACTTT
1 ATTTAGGATAGGTTCATCCCATTTATGATC-TTTTTTAAGTCTTTTAGGGTTACCGAGATACTTT
* * * * * * *
2661602 CACATCGAAAGTATATCTATAGGGGCATTTTTATAATTTTT-TAAAAAC-GAGTCTTAGGTTGTC
65 CACGTC-AAAGTATACCCATAGGGGCATTTTCATAATTTTTCT-AGAACTAAGTCCTAGGTTGTC
** ** *
2661665 ATCAGGATATTTTTATGCTGAAGGTTGGT
128 ATCAGGATGCTTTTATGCCAAAGGTGGGT
* * * * *
2661694 ATTTAGGATAGGTTCATCCTATTTATGATCCTTTTCAAGTTTTTTAGAGTTACCGAGATACTTTC
1 ATTTAGGATAGGTTCATCCCATTTATGATCTTTTTTAAGTCTTTTAGGGTTACCGAGATACTTTC
* *
2661759 ACATCAAAAATATACCCATA
66 ACGTC-AAAGTATACCCATA
2661779 AAGATATTTT
Statistics
Matches: 470, Mismatches: 71, Indels: 29
0.82 0.12 0.05
Matches are distributed among these distances:
154 6 0.01
155 73 0.16
156 99 0.21
157 145 0.31
158 144 0.31
159 3 0.01
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.41
Consensus pattern (156 bp):
ATTTAGGATAGGTTCATCCCATTTATGATCTTTTTTAAGTCTTTTAGGGTTACCGAGATACTTTC
ACGTCAAAGTATACCCATAGGGGCATTTTCATAATTTTTCTAGAACTAAGTCCTAGGTTGTCATC
AGGATGCTTTTATGCCAAAGGTGGGT
Found at i:2661681 original size:313 final size:314
Alignment explanation
Indices: 2661067--2661757 Score: 831
Period size: 313 Copynumber: 2.2 Consensus size: 314
2661057 AAAGTGTACC
* * * *
2661067 ATTTAGGATAGGTTCATCCCATTTATGATCTTTTTTTAGTCATTTAGGGTTACTGGGATACTTTT
1 ATTTAGGATAGGTTCATCCCATTTATGATCTTTTTTAAGTCTTTTAGAGTTACTGAGATACTTTT
* * * *
2661132 ACGTCGAAGGTATACCCATAAGGGCATTTTCATAATTTTTCTAGAACTAAGTCCTAATTTGTCAC
66 ACGCCCAAGGTATACCCATAAGGGCATTTTCATAATTTTTCTAAAACTAAGTCCTAAGTTGTCAC
* * *
2661197 CAAGTTGCTTTTATGCCAAAGGTGGGTATTTAGGATAGGTTCATCCTATTTATGATCCCTTTTTA
131 CAAGATGCTTTTATGCCAAAGGTGGGCATTTAGGATAGGTTCATCCCATTTATGATCCCTTTTTA
* *
2661262 AGTCTTTTAGGGTTACCGAGATACTTTCACGTCAACAGTATACTCATACGGGTATTTTCGAAATT
196 AGTCTTTTAGGGTTACCGAGATACTTTCACATCAACAGTATACTCATACGGGCATTTTCGAAATT
* * * * *
2661327 TTCCTAGAACTAAGTCCTAGTTTGTCACTGGATGCTTTTATGCCAAATGTGGGT
261 TTCCTAAAACTAAGTCCTAGGTTGTCACAGGATACTTTTATGCCAAAGGTGGGT
*
2661381 ATTTAGGATA-GTTCATCCCATTTATGATCTTTTTTAAGTCTTTTAGAGTTATTGAGATACTTTT
1 ATTTAGGATAGGTTCATCCCATTTATGATCTTTTTTAAGTCTTTTAGAGTTACTGAGATACTTTT
* * ** *
2661445 ATGCCCAAGGTATACCCATAGGGGTGTTTTCATAATTTTTCTAAAA-TCAAG-CCTTAGGTTGTC
66 ACGCCCAAGGTATACCCATAAGGGCATTTTCATAATTTTTCTAAAACT-AAGTCC-TAAGTTGTC
* ** * * **
2661508 ATCGGGATGCTTTTATGCCAAAGGTTGGCATTTAGGATAGGTTTATCCCATTTATGATCTTTTTT
129 ACCAAGATGCTTTTATGCCAAAGGTGGGCATTTAGGATAGGTTCATCCCATTTATGATCCCTTTT
* * * * *
2661573 TAAGTTTTTTAGGGTTATCGTGATACTTTCACATCGAA-AGTATA-TCTATAGGGGCATTTT-TA
194 TAAGTCTTTTAGGGTTACCGAGATACTTTCACATC-AACAGTATACTC-ATACGGGCATTTTCGA
* * * * ** *
2661635 TAATTTT-TTAAAAAC-GAGTCTTAGGTTGTCATCAGGATATTTTTATGCTGAAGGTTGGT
257 -AATTTTCCT-AAAACTAAGTCCTAGGTTGTCA-CAGGATACTTTTATGCCAAAGGTGGGT
* * * * *
2661694 ATTTAGGATAGGTTCATCCTATTTATGATCCTTTTCAAGTTTTTTAGAGTTACCGAGATACTTT
1 ATTTAGGATAGGTTCATCCCATTTATGATCTTTTTTAAGTCTTTTAGAGTTACTGAGATACTTT
2661758 CACATCAAAA
Statistics
Matches: 320, Mismatches: 49, Indels: 16
0.83 0.13 0.04
Matches are distributed among these distances:
312 20 0.06
313 241 0.75
314 59 0.18
ACGTcount: A:0.25, C:0.15, G:0.19, T:0.41
Consensus pattern (314 bp):
ATTTAGGATAGGTTCATCCCATTTATGATCTTTTTTAAGTCTTTTAGAGTTACTGAGATACTTTT
ACGCCCAAGGTATACCCATAAGGGCATTTTCATAATTTTTCTAAAACTAAGTCCTAAGTTGTCAC
CAAGATGCTTTTATGCCAAAGGTGGGCATTTAGGATAGGTTCATCCCATTTATGATCCCTTTTTA
AGTCTTTTAGGGTTACCGAGATACTTTCACATCAACAGTATACTCATACGGGCATTTTCGAAATT
TTCCTAAAACTAAGTCCTAGGTTGTCACAGGATACTTTTATGCCAAAGGTGGGT
Found at i:2662236 original size:15 final size:16
Alignment explanation
Indices: 2662197--2662237 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
2662187 TTCGAATTTA
2662197 TTTCTAATTTGAATCAT
1 TTTC-AATTTGAATCAT
*
2662214 TTTAAATTTGAAT-AT
1 TTTCAATTTGAATCAT
2662229 TTTCAATTT
1 TTTCAATTT
2662238 TGATTTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 10 0.45
16 9 0.41
17 3 0.14
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.56
Consensus pattern (16 bp):
TTTCAATTTGAATCAT
Found at i:2662820 original size:27 final size:27
Alignment explanation
Indices: 2662761--2662820 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 27
2662751 ATTTTATAAG
*
2662761 TGAGCTAAAATAAATATAAAATAACAC
1 TGAGTTAAAATAAATATAAAATAACAC
* *
2662788 TG-GTTAAAGTAAATATAAAA-AATCAT
1 TGAGTTAAAATAAATATAAAATAA-CAC
2662814 TGAGTTA
1 TGAGTTA
2662821 CATTTAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
25 2 0.07
26 20 0.71
27 6 0.21
ACGTcount: A:0.53, C:0.07, G:0.12, T:0.28
Consensus pattern (27 bp):
TGAGTTAAAATAAATATAAAATAACAC
Found at i:2663508 original size:19 final size:19
Alignment explanation
Indices: 2663484--2663530 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
2663474 TTTATAAGAT
2663484 TAGATATATATCAATAGAG
1 TAGATATATATCAATAGAG
*
2663503 TAGATATATATCAATAGAT
1 TAGATATATATCAATAGAG
2663522 TAGATATAT
1 TAGATATAT
2663531 TGATATATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.47, C:0.04, G:0.13, T:0.36
Consensus pattern (19 bp):
TAGATATATATCAATAGAG
Found at i:2663538 original size:2 final size:2
Alignment explanation
Indices: 2663533--2663560 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2663523 AGATATATTG
2663533 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
2663561 CAATATAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2664449 original size:16 final size:16
Alignment explanation
Indices: 2664428--2664485 Score: 73
Period size: 16 Copynumber: 3.6 Consensus size: 16
2664418 ATCTTGAGTT
2664428 TGGATTTGAATCTTAA
1 TGGATTTGAATCTTAA
* *
2664444 TGGATTTG-AGCTTTCAT
1 TGGATTTGAATC-TT-AA
2664461 TGGATTTGAATCTTAA
1 TGGATTTGAATCTTAA
2664477 TGGATTTGA
1 TGGATTTGA
2664486 GCTTTCATGA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
15 2 0.06
16 20 0.57
17 11 0.31
18 2 0.06
ACGTcount: A:0.26, C:0.07, G:0.22, T:0.45
Consensus pattern (16 bp):
TGGATTTGAATCTTAA
Found at i:2664449 original size:33 final size:33
Alignment explanation
Indices: 2664427--2664493 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
2664417 TATCTTGAGT
2664427 TTGGATTTGAATCTTAATGGATTTGAGCTTTCA
1 TTGGATTTGAATCTTAATGGATTTGAGCTTTCA
2664460 TTGGATTTGAATCTTAATGGATTTGAGCTTTCA
1 TTGGATTTGAATCTTAATGGATTTGAGCTTTCA
2664493 T
1 T
2664494 GAGTTTTGGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.24, C:0.09, G:0.21, T:0.46
Consensus pattern (33 bp):
TTGGATTTGAATCTTAATGGATTTGAGCTTTCA
Found at i:2664466 original size:17 final size:17
Alignment explanation
Indices: 2664444--2664493 Score: 59
Period size: 16 Copynumber: 3.0 Consensus size: 17
2664434 TGAATCTTAA
2664444 TGGATTTGAGCTTTCAT
1 TGGATTTGAGCTTTCAT
* *
2664461 TGGATTTGA-ATCTT-AA
1 TGGATTTGAGCT-TTCAT
2664477 TGGATTTGAGCTTTCAT
1 TGGATTTGAGCTTTCAT
2664494 GAGTTTTGGG
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
16 13 0.50
17 13 0.50
ACGTcount: A:0.22, C:0.10, G:0.22, T:0.46
Consensus pattern (17 bp):
TGGATTTGAGCTTTCAT
Found at i:2666570 original size:198 final size:196
Alignment explanation
Indices: 2666229--2666589 Score: 580
Period size: 198 Copynumber: 1.8 Consensus size: 196
2666219 ATGTTTTTTT
**
2666229 AAAAATTGATTCCTTTTAAGATGAACTGATATTTTAAGAAGATTGATTATTTTTTAAATAAAATT
1 AAAAATTGATTCCTTTTAAGATGAACTGATATTTTAAGAAGATCAATTATTTTTTAAATAAAATT
* *
2666294 AATTTTTCTTTGTCAAAATTTGGATGAACCTATGTAGGTTCGACTATTTTCTTATATAGTCGGAT
66 AATTTTTCTTTGTCAAAATTTGGATGAACCTATGTAGGTTCGACTATTTCCTTATATAGTCGGAC
2666359 TAGGTTTGGGCATAAAATTATACCTATATTTTGTACTTTGCATAAGCCCAACTCGATATTTTTAA
131 TAGGTTTGGGCATAAAATTATACCTATATTTTGTACTTTGCATAAGCCCAACTCGATATTTTTAA
2666424 A
196 A
* * *
2666425 AAAATATTGATTCTTTTTAAGATGAATTGATATTTTAAGAAGATCAATTATTTTTTTAAATGAAA
1 AAAA-ATTGATTCCTTTTAAGATGAACTGATATTTTAAGAAGATCAATTA-TTTTTTAAATAAAA
* * *
2666490 TTAGTTTTTTTTTGTCAAAATTTGGATGAACCTATGTAGGTT-GAACTATTTCCTTATTTAGTCG
64 TTAATTTTTCTTTGTCAAAATTTGGATGAACCTATGTAGGTTCG-ACTATTTCCTTATATAGTCG
* *
2666554 GCCTAGGTTTGGGCATAAAATTATACTTATATTTTG
128 GACTAGGTTTGGGCATAAAATTATACCTATATTTTG
2666590 GGTTAAGCTA
Statistics
Matches: 150, Mismatches: 12, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
196 4 0.03
197 42 0.28
198 104 0.69
ACGTcount: A:0.32, C:0.09, G:0.14, T:0.44
Consensus pattern (196 bp):
AAAAATTGATTCCTTTTAAGATGAACTGATATTTTAAGAAGATCAATTATTTTTTAAATAAAATT
AATTTTTCTTTGTCAAAATTTGGATGAACCTATGTAGGTTCGACTATTTCCTTATATAGTCGGAC
TAGGTTTGGGCATAAAATTATACCTATATTTTGTACTTTGCATAAGCCCAACTCGATATTTTTAA
A
Found at i:2667333 original size:2 final size:2
Alignment explanation
Indices: 2667326--2667365 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
2667316 GTGCCAATTC
2667326 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
2667366 GGGTGCAAGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2669589 original size:42 final size:41
Alignment explanation
Indices: 2669542--2669692 Score: 126
Period size: 41 Copynumber: 3.6 Consensus size: 41
2669532 TAAACGACAA
2669542 TAAATTTGA-ATATTTAGTGGCGTTTATGCTAAAAAACATCAC
1 TAAATTT-ATATATTTAGTGGCGTTTATGCTAAAAAA-ATCAC
* * * * * *
2669584 TAAATTTATGTATTTAGCGACATTTATGTTAAAAAAACCAC
1 TAAATTTATATATTTAGTGGCGTTTATGCTAAAAAAATCAC
* * * * * *
2669625 TAAATTTATGTATTTAGTAGTGTTTATACAAAAAAAATGCCAT
1 TAAATTTATATATTTAGTGGCGTTTATGCTAAAAAAAT--CAC
*
2669668 TAAATTTGA-ATATTTAATGGCGTTT
1 TAAATTT-ATATATTTAGTGGCGTTT
2669693 TAAGCTATAA
Statistics
Matches: 85, Mismatches: 20, Indels: 7
0.76 0.18 0.06
Matches are distributed among these distances:
41 34 0.40
42 29 0.34
43 21 0.25
44 1 0.01
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.39
Consensus pattern (41 bp):
TAAATTTATATATTTAGTGGCGTTTATGCTAAAAAAATCAC
Found at i:2671999 original size:13 final size:13
Alignment explanation
Indices: 2671981--2672029 Score: 66
Period size: 13 Copynumber: 3.9 Consensus size: 13
2671971 TTCAACGGTT
2671981 TGTATCGATACAA
1 TGTATCGATACAA
* *
2671994 TGTATC-A-ATAG
1 TGTATCGATACAA
2672005 TGTATCGATACAA
1 TGTATCGATACAA
2672018 TGTATCGATACA
1 TGTATCGATACA
2672030 TTACTCAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
11 8 0.27
12 2 0.07
13 20 0.67
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2672048 original size:34 final size:35
Alignment explanation
Indices: 2671981--2672065 Score: 111
Period size: 34 Copynumber: 2.4 Consensus size: 35
2671971 TTCAACGGTT
2671981 TGTATCGATACAATGTATCAATAGTGTATCGATACAA
1 TGTATCGATAC-AT-TATCAATAGTGTATCGATACAA
*
2672018 TGTATCGATACATTACTCAA-A-TGTATCGATACAT
1 TGTATCGATACATTA-TCAATAGTGTATCGATACAA
*
2672052 TGTATCAATACATT
1 TGTATCGATACATT
2672066 GATCTTTGTA
Statistics
Matches: 45, Mismatches: 2, Indels: 5
0.87 0.04 0.10
Matches are distributed among these distances:
34 25 0.56
35 3 0.07
36 6 0.13
37 11 0.24
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.35
Consensus pattern (35 bp):
TGTATCGATACATTATCAATAGTGTATCGATACAA
Found at i:2672057 original size:13 final size:13
Alignment explanation
Indices: 2671980--2672066 Score: 64
Period size: 13 Copynumber: 7.2 Consensus size: 13
2671970 TTTCAACGGT
2671980 TTGTATCGATACA
1 TTGTATCGATACA
* *
2671993 ATGTATC-A-ATA
1 TTGTATCGATACA
*
2672004 GTGTATCGATACA
1 TTGTATCGATACA
*
2672017 ATGTATCGATACA
1 TTGTATCGATACA
2672030 -T-TACTC-A-A-A
1 TTGTA-TCGATACA
2672039 -TGTATCGATACA
1 TTGTATCGATACA
*
2672051 TTGTATCAATACA
1 TTGTATCGATACA
2672064 TTG
1 TTG
2672067 ATCTTTGTAT
Statistics
Matches: 60, Mismatches: 6, Indels: 16
0.73 0.07 0.20
Matches are distributed among these distances:
9 4 0.07
10 4 0.07
11 12 0.20
12 6 0.10
13 34 0.57
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2672115 original size:52 final size:52
Alignment explanation
Indices: 2672091--2672200 Score: 202
Period size: 52 Copynumber: 2.1 Consensus size: 52
2672081 ACATGTAGGT
2672091 AAATTTGCCCAGATGTATCGATACACTATAAAATGTATCGATACATACAGGC
1 AAATTTGCCCAGATGTATCGATACACTATAAAATGTATCGATACATACAGGC
* *
2672143 AAATTTGCCCAGATGTATCGATACACTATGAAATGTATCGATACATGCAGGC
1 AAATTTGCCCAGATGTATCGATACACTATAAAATGTATCGATACATACAGGC
2672195 AAATTT
1 AAATTT
2672201 TCATATTTCG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 56 1.00
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.28
Consensus pattern (52 bp):
AAATTTGCCCAGATGTATCGATACACTATAAAATGTATCGATACATACAGGC
Found at i:2676183 original size:79 final size:79
Alignment explanation
Indices: 2676047--2676250 Score: 185
Period size: 79 Copynumber: 2.6 Consensus size: 79
2676037 GAGATAATAA
* * * * * ** * ** * *
2676047 CGGGGTTGGAGTGTTCCCTTGAAAATAACGAGACTGGAGTATCTCCGGTTGTGAGAAATCGATGA
1 CGGGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAAT-A
*
2676112 -TTAGAAAAAAAAAT
65 TTTAGAAAAAAAAAC
*
2676126 CGGGATTGGAGTATCCCCTCGAAAATGACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATAT
1 CGGGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATAT
* ** * *
2676191 TTTGGGAATAAAGC
66 TTAGAAAAAAAAAC
* * * *
2676205 CGGGGTTGGAGTATCCCCTCGGAAGTAATGGGGTTGGAGTATCCCC
1 CGGGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCC
2676251 GATGAAATAA
Statistics
Matches: 100, Mismatches: 24, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
78 1 0.01
79 99 0.99
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.25
Consensus pattern (79 bp):
CGGGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATAT
TTAGAAAAAAAAAC
Found at i:2676267 original size:28 final size:28
Alignment explanation
Indices: 2676208--2676281 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 28
2676198 ATAAAGCCGG
*** * * *
2676208 GGTTGGAGTATCCCCTCGGAAGTAATGG
1 GGTTGGAGTATCCCCGATGAAATAACGA
2676236 GGTTGGAGTATCCCCGATGAAATAACGA
1 GGTTGGAGTATCCCCGATGAAATAACGA
*
2676264 GGTTGGAGTATCCTCGAT
1 GGTTGGAGTATCCCCGAT
2676282 TATGAAAAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.26
Consensus pattern (28 bp):
GGTTGGAGTATCCCCGATGAAATAACGA
Found at i:2676334 original size:52 final size:51
Alignment explanation
Indices: 2676264--2676650 Score: 287
Period size: 51 Copynumber: 7.4 Consensus size: 51
2676254 GAAATAACGA
* *
2676264 GGTTGGAGTATCCTCGATTATGAAAAATTGGTATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGT-GTTTTGGAAATAAAATCGG
** * * * *
2676316 AATTGGAGTATCCCCGATTAAAGGGAAAATTGGTGTTTTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT--ATGAAAAATTGGTGTTTTGGAAATAAAATCGG
* * * * *
2676369 GGTTGGAGTATCCCCGATTGTGAAAAAATTAGTGTTTTAGCAATAAAACCGG
1 GGTTGGAGTATCCCCGATTATG-AAAAATTGGTGTTTTGGAAATAAAATCGG
*** * *
2676421 GGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTGGAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAATCGG
** *** * **** * *
2676472 GGTTGGAGTATCCCCTCGAAAAT-AACGGGGTTGAAGTATCCCCGATGAT-TAA-CGG
1 GGTTGGAGTAT-CCC-CGATTATGAA--AAATTG--GTGTTTTGGA-AATAAAATCGG
*
2676527 GGTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAA-AAATTGGTG--TTTTGGAAATAAAATCGG
* * *
2676581 AGTTGGAGTATCCCCGATTAT-AGAAAATTAGTGTTTTGAAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGA-AAAATTGGTGTTTTGGAAATAAAATCGG
* *
2676632 AGTTGGAATATCCCCGATT
1 GGTTGGAGTATCCCCGATT
2676651 GTGGAGAATT
Statistics
Matches: 261, Mismatches: 58, Indels: 33
0.74 0.16 0.09
Matches are distributed among these distances:
51 71 0.27
52 68 0.26
53 60 0.23
54 40 0.15
55 14 0.05
56 6 0.02
57 2 0.01
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAATCGG
Found at i:2676536 original size:27 final size:27
Alignment explanation
Indices: 2676469--2676544 Score: 100
Period size: 27 Copynumber: 2.8 Consensus size: 27
2676459 GAAATAAAGT
2676469 CGGGGTTGGAGTATCCCCTCGA-AAATAA
1 CGGGGTTGGAGTAT-CCC-CGATAAATAA
* * *
2676497 CGGGGTTGAAGTATCCCCGATGATTAA
1 CGGGGTTGGAGTATCCCCGATAAATAA
2676524 CGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
2676545 TGTGAAGAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 3 0.07
27 27 0.63
28 13 0.30
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.24
Consensus pattern (27 bp):
CGGGGTTGGAGTATCCCCGATAAATAA
Found at i:2679009 original size:13 final size:13
Alignment explanation
Indices: 2678991--2679017 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2678981 AAAATTCCCA
2678991 AATGTATCGATAC
1 AATGTATCGATAC
2679004 AATGTATCGATAC
1 AATGTATCGATAC
2679017 A
1 A
2679018 CAGAAAAATG
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):
AATGTATCGATAC
Found at i:2679173 original size:21 final size:21
Alignment explanation
Indices: 2679149--2679204 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
2679139 ATTTGTAGAT
2679149 TGTATCGATACATTCCACAAA
1 TGTATCGATACATTCCACAAA
*
2679170 TGTATCGATACATTCTACAAA
1 TGTATCGATACATTCCACAAA
2679191 TGTATCGATACATT
1 TGTATCGATACATT
2679205 TGGATAAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.36, C:0.20, G:0.11, T:0.34
Consensus pattern (21 bp):
TGTATCGATACATTCCACAAA
Found at i:2679343 original size:51 final size:52
Alignment explanation
Indices: 2679259--2679370 Score: 154
Period size: 51 Copynumber: 2.2 Consensus size: 52
2679249 GGAAATGGAT
* * * *
2679259 TCGATACATTTTAGGTTTTTGACCCAAAGGTATTGATACATTTTTCATTATA
1 TCGATACATTCTAGGGTTTTGACCCAAAGGTATTGATACATTCTTCAATATA
* *
2679311 TCGATACATTCT-GGGTTTTGACCCAAATGTATTGATACATTCTTCAATGTA
1 TCGATACATTCTAGGGTTTTGACCCAAAGGTATTGATACATTCTTCAATATA
*
2679362 TCAATACAT
1 TCGATACAT
2679371 GTAGATAATT
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
51 42 0.79
52 11 0.21
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.41
Consensus pattern (52 bp):
TCGATACATTCTAGGGTTTTGACCCAAAGGTATTGATACATTCTTCAATATA
Found at i:2688250 original size:2 final size:2
Alignment explanation
Indices: 2688243--2688276 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
2688233 AATTCAATCC
2688243 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
2688277 CACTAAGCAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2688528 original size:2 final size:2
Alignment explanation
Indices: 2688521--2688556 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
2688511 CAAAAGTTAC
2688521 AT AT AT AT AT AT AT AT AT AT A- AT AT A- AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2688557 AAGGAGAGGC
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
1 3 0.10
2 28 0.90
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:2688815 original size:20 final size:19
Alignment explanation
Indices: 2688781--2688832 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 19
2688771 TGATTAAATA
**
2688781 TATAATATATTAAATATAAT
1 TATAATATAAAAAATAT-AT
2688801 TATAATAT-AAAAA-ATAT
1 TATAATATAAAAAATATAT
2688818 TATAA-ATAAAAAATA
1 TATAATATAAAAAATA
2688833 AATACATAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
16 2 0.07
17 12 0.43
18 3 0.11
19 3 0.11
20 8 0.29
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
TATAATATAAAAAATATAT
Found at i:2688825 original size:18 final size:18
Alignment explanation
Indices: 2688776--2688830 Score: 53
Period size: 18 Copynumber: 3.1 Consensus size: 18
2688766 AAATTTGATT
*
2688776 AAATA-TATAATATATTAA
1 AAATATTATAA-ATATAAA
*
2688794 ATATAATTAT-AATATAAA
1 AAAT-ATTATAAATATAAA
2688812 AAATATTATAAATA-AAA
1 AAATATTATAAATATAAA
2688829 AA
1 AA
2688831 TAAATACATA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
17 10 0.32
18 16 0.52
19 2 0.06
20 3 0.10
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
AAATATTATAAATATAAA
Found at i:2688828 original size:16 final size:17
Alignment explanation
Indices: 2688776--2688832 Score: 64
Period size: 16 Copynumber: 3.3 Consensus size: 17
2688766 AAATTTGATT
2688776 AAATA-TATAATATATTAA
1 AAATATTATAATATA--AA
*
2688794 ATATAATTATAATATAAA
1 AAAT-ATTATAATATAAA
2688812 AAATATTATAA-ATAAA
1 AAATATTATAATATAAA
2688828 AAATA
1 AAATA
2688833 AATACATAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
16 10 0.29
17 7 0.20
18 8 0.23
19 1 0.03
20 9 0.26
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
AAATATTATAATATAAA
Found at i:2690949 original size:41 final size:41
Alignment explanation
Indices: 2690904--2690998 Score: 163
Period size: 41 Copynumber: 2.3 Consensus size: 41
2690894 TTAATAATTT
*
2690904 AATGGTGTTTTAAAAAATAAATGTTGCTAAATTATTTTTAC
1 AATGGCGTTTTAAAAAATAAATGTTGCTAAATTATTTTTAC
*
2690945 AATGGCGTTTTAAGAAATAAATGTTGCTAAATTATTTTTAC
1 AATGGCGTTTTAAAAAATAAATGTTGCTAAATTATTTTTAC
*
2690986 AATGGCATTTTAA
1 AATGGCGTTTTAA
2690999 TTTAAATGTC
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.38, C:0.06, G:0.14, T:0.42
Consensus pattern (41 bp):
AATGGCGTTTTAAAAAATAAATGTTGCTAAATTATTTTTAC
Found at i:2693077 original size:13 final size:12
Alignment explanation
Indices: 2693057--2693095 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
2693047 ATTTTGTTTT
2693057 GTGATTTTTAAA
1 GTGATTTTTAAA
2693069 GTGATTTTTAAAA
1 GTGATTTTT-AAA
* *
2693082 ATGACTTTTAAA
1 GTGATTTTTAAA
2693094 GT
1 GT
2693096 ATGAATGCAC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
12 13 0.57
13 10 0.43
ACGTcount: A:0.36, C:0.03, G:0.15, T:0.46
Consensus pattern (12 bp):
GTGATTTTTAAA
Found at i:2693936 original size:28 final size:28
Alignment explanation
Indices: 2693905--2693969 Score: 87
Period size: 28 Copynumber: 2.3 Consensus size: 28
2693895 ATGGAGCTGG
*
2693905 AGTATCCCCTTAAAGATGG-CAGGGTTAA
1 AGTATCCCCTCAAAGATGGTC-GGGTTAA
* *
2693933 AGTATCCCCTCAGAGATGGTCGGGTTGA
1 AGTATCCCCTCAAAGATGGTCGGGTTAA
2693961 AGTATCCCC
1 AGTATCCCC
2693970 AAGAATGAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
28 32 0.97
29 1 0.03
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (28 bp):
AGTATCCCCTCAAAGATGGTCGGGTTAA
Found at i:2697051 original size:19 final size:19
Alignment explanation
Indices: 2697027--2697094 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
2697017 AATTCAACGA
2697027 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
2697046 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
2697061 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
2697078 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
2697095 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:2697065 original size:32 final size:32
Alignment explanation
Indices: 2697029--2697091 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
2697019 TTCAACGATT
*
2697029 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
2697061 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
2697092 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:2697066 original size:13 final size:13
Alignment explanation
Indices: 2697048--2697072 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2697038 ACATAAGTTT
2697048 TGTATCGATACAA
1 TGTATCGATACAA
2697061 TGTATCGATACA
1 TGTATCGATACA
2697073 TAAGTATTGT
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:2697171 original size:33 final size:33
Alignment explanation
Indices: 2697114--2697180 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 33
2697104 GCCAAGGAAA
*** **
2697114 TGTATCGATACATTTTTCTGTGTATTGATACAT
1 TGTATCGATACATGGATCTGTGTATCAATACAT
*
2697147 TGTATCGATACATGGATCTTTGTATCAATACAT
1 TGTATCGATACATGGATCTGTGTATCAATACAT
2697180 T
1 T
2697181 TGGAAATTTT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.27, C:0.13, G:0.15, T:0.45
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCAATACAT
Found at i:2699583 original size:51 final size:53
Alignment explanation
Indices: 2699519--2699649 Score: 169
Period size: 51 Copynumber: 2.5 Consensus size: 53
2699509 AGTTTCTCAA
* * * *
2699519 TTCTCCACAATCGGGGATATTCCAACTCCGATTTTATTTTC-AAAACACTAA-
1 TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
* *
2699570 TT-TTCTATAATCGGGGATACTCTAACTCCGATTTTATTTCCAAAAAACACCAAT
1 TTCTTC-ACAATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAAACACCAAT
2699624 TTCTTCACAATCGGGGATACTCCAAC
1 TTCTTCACAATCGGGGATACTCCAAC
2699650 CTCGTTAATC
Statistics
Matches: 67, Mismatches: 8, Indels: 7
0.82 0.10 0.09
Matches are distributed among these distances:
50 2 0.03
51 33 0.49
53 9 0.13
54 20 0.30
55 3 0.04
ACGTcount: A:0.31, C:0.25, G:0.11, T:0.33
Consensus pattern (53 bp):
TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
Found at i:2699703 original size:28 final size:27
Alignment explanation
Indices: 2699636--2699708 Score: 92
Period size: 27 Copynumber: 2.7 Consensus size: 27
2699626 CTTCACAATC
* **
2699636 GGGGATACTCCAACCTCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCAGA
* *
2699663 GGGGATACTCCAACCCCGTTATTTCCGA
1 GGGGATACTCCAACCCCGTTA-ATCAGA
2699691 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
2699709 GTTTTATCGC
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
27 20 0.50
28 20 0.50
ACGTcount: A:0.23, C:0.33, G:0.22, T:0.22
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCAGA
Found at i:2699776 original size:52 final size:52
Alignment explanation
Indices: 2699691--2699861 Score: 154
Period size: 52 Copynumber: 3.3 Consensus size: 52
2699681 TTATTTCCGA
* *
2699691 GGGGATACTCCAACCCCGGTTTTA--TCGCTAAAACACTAATTTTTCCTCAATC
1 GGGGATACTCCAA-CCCGGTTTTATTTC-CAAAAACACCAATTTTTCCTCAATC
* * *
2699743 GGGGATACTCCAATCCCGGTTTTATTTTC-AAAACGCCAA-TTTTCCTTTAATC
1 GGGGATACTCCAA-CCCGGTTTTATTTCCAAAAACACCAATTTTTCC-TCAATC
* * * * *
2699795 GGGGATATTCCAACTCCGATTCTATTTCCAAAAATACCAATTTTT-CACAATC
1 GGGGATACTCCAAC-CCGGTTTTATTTCCAAAAACACCAATTTTTCCTCAATC
* *
2699847 GAGAATACTCCAACC
1 GGGGATACTCCAACC
2699862 TCGTTATTTC
Statistics
Matches: 97, Mismatches: 16, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
51 8 0.08
52 74 0.76
53 10 0.10
54 5 0.05
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.32
Consensus pattern (52 bp):
GGGGATACTCCAACCCGGTTTTATTTCCAAAAACACCAATTTTTCCTCAATC
Found at i:2699882 original size:28 final size:28
Alignment explanation
Indices: 2699851--2699920 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
2699841 ACAATCGAGA
* *
2699851 ATACTCCAACCTCGTTATTTCAT-CGGGG
1 ATACTCCAACCTCGTTACTTC-TGAGGGG
*
2699879 ATACTCCAACCCCGTTACTTCTGAGGGG
1 ATACTCCAACCTCGTTACTTCTGAGGGG
*
2699907 ATACTCCAATCTCG
1 ATACTCCAACCTCG
2699921 ATTTTTTTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
27 1 0.03
28 35 0.97
ACGTcount: A:0.23, C:0.31, G:0.17, T:0.29
Consensus pattern (28 bp):
ATACTCCAACCTCGTTACTTCTGAGGGG
Found at i:2699893 original size:212 final size:212
Alignment explanation
Indices: 2699526--2699915 Score: 606
Period size: 212 Copynumber: 1.8 Consensus size: 212
2699516 CAATTCTCCA
* *
2699526 CAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGATACT
1 CAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGATACT
* * * *
2699591 CTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACCTCGTT
66 CCAACTCCGATTCTATTTCCAAAAAACACCAATTTCTTCACAATCGAGAATACTCCAACCTCGTT
*
2699656 AATCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATCGCTA
131 AATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGTTTTATCGCTA
2699721 AAACACTAATTTTTCCT
196 AAACACTAATTTTTCCT
* * *
2699738 CAATCGGGGATACTCCAA-TCCCGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCGGGGATA
1 CAATCGGGGATACTCCAACT-CCGATTTTATTTTCAAAACACCAATTTT-CTATAATCGGGGATA
* *
2699802 TTCCAACTCCGATTCTATTTCC-AAAAATACCAATTT-TTCACAATCGAGAATACTCCAACCTCG
64 CTCCAACTCCGATTCTATTTCCAAAAAACACCAATTTCTTCACAATCGAGAATACTCCAACCTCG
* *
2699865 TTATTTCATCGGGGATACTCCAACCCCGTTACTTCTGAGGGGATACTCCAA
129 TTA-ATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAA
2699916 TCTCGATTTT
Statistics
Matches: 161, Mismatches: 14, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
211 29 0.18
212 99 0.61
213 33 0.20
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (212 bp):
CAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGATACT
CCAACTCCGATTCTATTTCCAAAAAACACCAATTTCTTCACAATCGAGAATACTCCAACCTCGTT
AATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGTTTTATCGCTA
AAACACTAATTTTTCCT
Found at i:2701248 original size:9 final size:10
Alignment explanation
Indices: 2701226--2701252 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
2701216 AACATATTCC
2701226 AAAAATCCTA
1 AAAAATCCTA
2701236 AAAAATCCTA
1 AAAAATCCTA
2701246 AAAAATC
1 AAAAATC
2701253 ACTTTCTAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.63, C:0.19, G:0.00, T:0.19
Consensus pattern (10 bp):
AAAAATCCTA
Found at i:2702647 original size:11 final size:12
Alignment explanation
Indices: 2702615--2702647 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
2702605 GGCTAAGATA
*
2702615 TGGCTGGAAATG
1 TGGCTGAAAATG
2702627 TGGCTGAAAATG
1 TGGCTGAAAATG
2702639 TGGCT-AAAA
1 TGGCTGAAAA
2702648 AAAGTCCTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 4 0.20
12 16 0.80
ACGTcount: A:0.33, C:0.09, G:0.33, T:0.24
Consensus pattern (12 bp):
TGGCTGAAAATG
Found at i:2703296 original size:21 final size:20
Alignment explanation
Indices: 2703270--2703310 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 20
2703260 ATTGGGACCT
2703270 TGTATTGATACATGTAAGGCA
1 TGTATTGATACATGT-AGGCA
2703291 TGTATTGATACATGTAGGCA
1 TGTATTGATACATGTAGGCA
2703311 AAAATGTGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.32, C:0.10, G:0.24, T:0.34
Consensus pattern (20 bp):
TGTATTGATACATGTAGGCA
Found at i:2705328 original size:2 final size:2
Alignment explanation
Indices: 2705321--2705348 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2705311 ATCTACTATG
2705321 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
2705349 GTAGAGACTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2708339 original size:24 final size:24
Alignment explanation
Indices: 2708311--2708356 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
2708301 AATAAAAATT
2708311 AGCCACCAATTTTGACAAACAACA
1 AGCCACCAATTTTGACAAACAACA
*
2708335 AGCCACCAATTTTTACAAACAA
1 AGCCACCAATTTTGACAAACAA
2708357 AAATAACCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.46, C:0.28, G:0.07, T:0.20
Consensus pattern (24 bp):
AGCCACCAATTTTGACAAACAACA
Found at i:2708393 original size:28 final size:28
Alignment explanation
Indices: 2708361--2708415 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
2708351 AAACAAAAAT
* *
2708361 AACCATCATATTTGACAAATATAAAGGA
1 AACCACCATATTTGACAAATACAAAGGA
2708389 AACCACCATATTTGACAAATACAAAGG
1 AACCACCATATTTGACAAATACAAAGG
2708416 GTGGCATTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.49, C:0.18, G:0.11, T:0.22
Consensus pattern (28 bp):
AACCACCATATTTGACAAATACAAAGGA
Found at i:2710343 original size:21 final size:22
Alignment explanation
Indices: 2710305--2710350 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
2710295 ATCTGTTGAA
**
2710305 ACTCCACCTATTTTGGAGTA-T
1 ACTCCACCTATTGCGGAGTACT
*
2710326 ACTCCACCTGTTGCGGAGTACT
1 ACTCCACCTATTGCGGAGTACT
2710348 ACT
1 ACT
2710351 TGTCTGAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.22, C:0.28, G:0.17, T:0.33
Consensus pattern (22 bp):
ACTCCACCTATTGCGGAGTACT
Found at i:2712848 original size:20 final size:20
Alignment explanation
Indices: 2712803--2712842 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
2712793 AAGAATTGAA
2712803 GAGGGATACAAGAGAGGGAT
1 GAGGGATACAAGAGAGGGAT
* *
2712823 GAGGGATACTAGAGATGGAT
1 GAGGGATACAAGAGAGGGAT
2712843 TTGGGAGCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.05, G:0.42, T:0.15
Consensus pattern (20 bp):
GAGGGATACAAGAGAGGGAT
Found at i:2712923 original size:24 final size:24
Alignment explanation
Indices: 2712895--2712940 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
2712885 AATAAAAATT
2712895 AGCCACCAATTTTGACAAACAACA
1 AGCCACCAATTTTGACAAACAACA
*
2712919 AGCCACCAATTTTTACAAACAA
1 AGCCACCAATTTTGACAAACAA
2712941 AAATAACCAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.46, C:0.28, G:0.07, T:0.20
Consensus pattern (24 bp):
AGCCACCAATTTTGACAAACAACA
Found at i:2712999 original size:28 final size:28
Alignment explanation
Indices: 2712945--2712999 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
2712935 AAACAAAAAT
**
2712945 AACCACCATATTTGACAAATATGAAGGA
1 AACCACCATATTTGACAAATACAAAGGA
2712973 AACCACCATATTTGACAAATACAAAGG
1 AACCACCATATTTGACAAATACAAAGG
2713000 GTGGCATTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.47, C:0.20, G:0.13, T:0.20
Consensus pattern (28 bp):
AACCACCATATTTGACAAATACAAAGGA
Found at i:2715871 original size:15 final size:16
Alignment explanation
Indices: 2715841--2715873 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
2715831 AAAAAATAAA
*
2715841 AATTATATTATTTTAT
1 AATTATAATATTTTAT
2715857 AATTATAAT-TTTTAT
1 AATTATAATATTTTAT
2715872 AA
1 AA
2715874 ATTAAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
AATTATAATATTTTAT
Found at i:2715876 original size:16 final size:17
Alignment explanation
Indices: 2715840--2715882 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
2715830 AAAAAAATAA
*
2715840 AAATTATATTATTTTAT
1 AAATTATAATATTTTAT
2715857 -AATTATAAT-TTTTAT
1 AAATTATAATATTTTAT
*
2715872 AAATTAAAATA
1 AAATTATAATA
2715883 AATAATAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 6 0.27
16 16 0.73
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
AAATTATAATATTTTAT
Found at i:2715926 original size:29 final size:27
Alignment explanation
Indices: 2715894--2715948 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
2715884 ATAATAAAAT
2715894 TTAAAATTGATTAATAATTTTATAAATAG
1 TTAAAATTGA-T-ATAATTTTATAAATAG
* *
2715923 TTAAAATTTATATTATTTTATAAATA
1 TTAAAATTGATATAATTTTATAAATA
2715949 ATTTTATAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 14 0.58
28 1 0.04
29 9 0.38
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (27 bp):
TTAAAATTGATATAATTTTATAAATAG
Found at i:2717009 original size:13 final size:13
Alignment explanation
Indices: 2716993--2717017 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2716983 TCCATCTCTC
2716993 TTTTCTTTTTTTT
1 TTTTCTTTTTTTT
2717006 TTTTCTTTTTTT
1 TTTTCTTTTTTT
2717018 CCTTTTTATT
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:0.08, G:0.00, T:0.92
Consensus pattern (13 bp):
TTTTCTTTTTTTT
Found at i:2717642 original size:28 final size:27
Alignment explanation
Indices: 2717571--2717645 Score: 69
Period size: 28 Copynumber: 2.7 Consensus size: 27
2717561 AGTCACGAAT
* * *
2717571 TATTAATTTTATCAAATTACATTATTA
1 TATTAATTTTATTAAATAAAATTATTA
* ** *
2717598 AATTTTTTATTAATAAATAAAATTATTTA
1 TATTAATT-TTATTAAATAAAATTA-TTA
2717627 TATTAATTTTATTAAATAA
1 TATTAATTTTATTAAATAA
2717646 TTTTAATAAA
Statistics
Matches: 35, Mismatches: 11, Indels: 3
0.71 0.22 0.06
Matches are distributed among these distances:
27 5 0.14
28 22 0.63
29 8 0.23
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (27 bp):
TATTAATTTTATTAAATAAAATTATTA
Found at i:2719529 original size:34 final size:34
Alignment explanation
Indices: 2719483--2719552 Score: 106
Period size: 34 Copynumber: 2.1 Consensus size: 34
2719473 GTGTTAATTG
2719483 AAGTGAAGAAGATCGGTAGATGAATCACCCATCT
1 AAGTGAAGAAGATCGGTAGATGAATCACCCATCT
* *
2719517 AAGTG-AGAAAGATTGGTAGATGAATCGCCCATCT
1 AAGTGAAG-AAGATCGGTAGATGAATCACCCATCT
2719551 AA
1 AA
2719553 CCGATCCTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
33 2 0.06
34 31 0.94
ACGTcount: A:0.39, C:0.16, G:0.24, T:0.21
Consensus pattern (34 bp):
AAGTGAAGAAGATCGGTAGATGAATCACCCATCT
Found at i:2720483 original size:97 final size:97
Alignment explanation
Indices: 2720341--2720737 Score: 340
Period size: 97 Copynumber: 4.1 Consensus size: 97
2720331 GAGGAATAGA
* * ** * *
2720341 GTTGGAGTATCCTCGATGA-AGACAATTTGGGTGAAAATGAGATTTAAATCTTGACAAGTTTAAA
1 GTTGGAGTATCCTAGATGATA-ACAATTTGAGCAAAAATAAGATTTAAACCTTGACAAGTTTAAA
*
2720405 AACGAGGTTAGAGTATCCCCTCGGAAGAATGGG
65 AACAAGGTTAGAGTATCCCCTCGGAAGAATGGG
* * * **
2720438 GTTAGAGTATCCTAGATGATAACAATTTGAGCAAAAATAAAATTTAAACCTTTATGAGTTTAAAA
1 GTTGGAGTATCCTAGATGATAACAATTTGAGCAAAAATAAGATTTAAACCTTGACAAGTTTAAAA
* * *
2720503 ATAAGATT-GAAGTA-CCCCTCGG-AGAAATGTG
66 ACAAGGTTAG-AGTATCCCCTCGGAAG-AATGGG
* * * * * * * * * * *
2720534 GTTGGAGTGTCCTCGACGATGATAGTAT-AGGCAAAAATAATATTTAAATCTTGACAAATTCAAA
1 GTTGGAGTATCCTAGATGATAACAATTTGA-GCAAAAATAAGATTTAAACCTTGACAAGTTTAAA
* * ** * *
2720598 AAC-GGAGTTAGAGCATCCTGTAGGAAGAATGGA
65 AACAAG-GTTAGAGTATCCCCTCGGAAGAATGGG
* *
2720631 GTTGGAGTATCCGTA-ATGATAATAATTTAAGCAAAAATAAGATTTAAACCTTGACAAGTTTAAA
1 GTTGGAGTATCC-TAGATGATAACAATTTGAGCAAAAATAAGATTTAAACCTTGACAAGTTTAAA
* * * * *
2720695 AATAAAGTTGGAGTATCCCCTCGAAATAATGGG
65 AACAAGGTTAGAGTATCCCCTCGGAAGAATGGG
2720728 GTTGGAGTAT
1 GTTGGAGTAT
2720738 TCCCAATGAA
Statistics
Matches: 229, Mismatches: 60, Indels: 22
0.74 0.19 0.07
Matches are distributed among these distances:
95 4 0.02
96 68 0.30
97 152 0.66
98 5 0.02
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.28
Consensus pattern (97 bp):
GTTGGAGTATCCTAGATGATAACAATTTGAGCAAAAATAAGATTTAAACCTTGACAAGTTTAAAA
ACAAGGTTAGAGTATCCCCTCGGAAGAATGGG
Found at i:2720670 original size:193 final size:194
Alignment explanation
Indices: 2720382--2720735 Score: 484
Period size: 193 Copynumber: 1.8 Consensus size: 194
2720372 TGAAAATGAG
* * * * *
2720382 ATTTAAATCTTGACAAGTTTAAAAACGAGGTTAGAGTATCCCCTCGGAAGAATGGGGTTAGAGTA
1 ATTTAAATCTTGACAAATTCAAAAACGAGGTTAGAGCATCCCCTAGGAAGAATGGAGTTAGAGTA
* * **
2720447 TCCTAGATGATAACAATTTGAGCAAAAATAAAATTTAAACCTTTATGAGTTTAAAAAT-AAGATT
66 TCCTAGATGATAACAATTTAAGCAAAAATAAAATTTAAACCTTGACAAGTTTAAAAATAAAG-TT
* *
2720511 GAAGTA-CCCCTCGGAGA-AATGTGGTTGGAGTGTCCTCGACGATGATAGTATAGGCAAAAATAA
130 GAAGTATCCCCTC-GAAATAATGGGGTTGGAGTGTCCTCGACGATGATAGTATAGGCAAAAATAA
2720574 T
194 T
** *
2720575 ATTTAAATCTTGACAAATTCAAAAACG-GAGTTAGAGCATCCTGTAGGAAGAATGGAGTTGGAGT
1 ATTTAAATCTTGACAAATTCAAAAACGAG-GTTAGAGCATCCCCTAGGAAGAATGGAGTTAGAGT
* *
2720639 ATCCGTA-ATGATAATAATTTAAGCAAAAATAAGATTTAAACCTTGACAAGTTTAAAAATAAAGT
65 ATCC-TAGATGATAACAATTTAAGCAAAAATAAAATTTAAACCTTGACAAGTTTAAAAATAAAGT
*
2720703 TGGAGTATCCCCTCGAAATAATGGGGTTGGAGT
129 TGAAGTATCCCCTCGAAATAATGGGGTTGGAGT
2720736 ATTCCCAATG
Statistics
Matches: 139, Mismatches: 17, Indels: 9
0.84 0.10 0.05
Matches are distributed among these distances:
192 1 0.01
193 114 0.82
194 24 0.17
ACGTcount: A:0.39, C:0.12, G:0.21, T:0.28
Consensus pattern (194 bp):
ATTTAAATCTTGACAAATTCAAAAACGAGGTTAGAGCATCCCCTAGGAAGAATGGAGTTAGAGTA
TCCTAGATGATAACAATTTAAGCAAAAATAAAATTTAAACCTTGACAAGTTTAAAAATAAAGTTG
AAGTATCCCCTCGAAATAATGGGGTTGGAGTGTCCTCGACGATGATAGTATAGGCAAAAATAAT
Found at i:2723264 original size:20 final size:20
Alignment explanation
Indices: 2723239--2723288 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
2723229 TAGTGTCTAT
*
2723239 TATCGATACATTCACTTGTG
1 TATCGATACATTCACTTATG
* *
2723259 TATCGATGCATTCATTTATG
1 TATCGATACATTCACTTATG
*
2723279 TATCAATACA
1 TATCGATACA
2723289 AATTGTAGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.40
Consensus pattern (20 bp):
TATCGATACATTCACTTATG
Found at i:2727385 original size:47 final size:47
Alignment explanation
Indices: 2727258--2727402 Score: 175
Period size: 47 Copynumber: 3.1 Consensus size: 47
2727248 TTGCCAATAA
* * * * *
2727258 AAAACAATTTAAATATTGATTCATTTTTGATTAACCTAAATCTTAAC
1 AAAACAATTTAGATATTGATTCGTTTCTGATTAGCCTCAATCTTAAC
* *
2727305 AAAATAATTTAGATATTGA-TCGGTTTCTGATTAGCCTCAATCTTAAG
1 AAAACAATTTAGATATTGATTC-GTTTCTGATTAGCCTCAATCTTAAC
* * * *
2727352 AAAACAATCTAGATATTGATTCGTTTCTGATTAGCCACAATCCTAGC
1 AAAACAATTTAGATATTGATTCGTTTCTGATTAGCCTCAATCTTAAC
2727399 AAAA
1 AAAA
2727403 TGATTTTGTA
Statistics
Matches: 83, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
46 2 0.02
47 79 0.95
48 2 0.02
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.36
Consensus pattern (47 bp):
AAAACAATTTAGATATTGATTCGTTTCTGATTAGCCTCAATCTTAAC
Found at i:2730853 original size:60 final size:61
Alignment explanation
Indices: 2730752--2730876 Score: 198
Period size: 60 Copynumber: 2.1 Consensus size: 61
2730742 AACTCTACCC
* *
2730752 TTTTAACTTTATTAATGACAATGAATTATTAACATAGAA-TTTTAATTTATTTATAAATAT
1 TTTTAACTTTACTAATGACAATGAATTATTAACATAAAATTTTTAATTTATTTATAAATAT
* * *
2730812 TTTTAACTTTACTAATGACAATGAGTTGTTAATATAAAATTTTTAATTTATTTATAAATAT
1 TTTTAACTTTACTAATGACAATGAATTATTAACATAAAATTTTTAATTTATTTATAAATAT
2730873 TTTT
1 TTTT
2730877 TGATAGTTTT
Statistics
Matches: 59, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
60 34 0.58
61 25 0.42
ACGTcount: A:0.39, C:0.05, G:0.06, T:0.50
Consensus pattern (61 bp):
TTTTAACTTTACTAATGACAATGAATTATTAACATAAAATTTTTAATTTATTTATAAATAT
Found at i:2731597 original size:10 final size:10
Alignment explanation
Indices: 2731584--2731650 Score: 62
Period size: 11 Copynumber: 6.4 Consensus size: 10
2731574 TATATAATTT
2731584 AAAATAAATA
1 AAAATAAATA
2731594 AAAATAAATA
1 AAAATAAATA
* *
2731604 AAACTAATTTA
1 AAAATAA-ATA
* *
2731615 AAAATCAACA
1 AAAATAAATA
2731625 CAAAATAAATA
1 -AAAATAAATA
*
2731636 AAATCTAAATA
1 AAA-ATAAATA
2731647 AAAA
1 AAAA
2731651 CTCTAAAATT
Statistics
Matches: 44, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
10 20 0.45
11 24 0.55
ACGTcount: A:0.72, C:0.07, G:0.00, T:0.21
Consensus pattern (10 bp):
AAAATAAATA
Found at i:2735773 original size:13 final size:13
Alignment explanation
Indices: 2735755--2735780 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2735745 TACAGCAAGT
2735755 ATGTATCGATACA
1 ATGTATCGATACA
2735768 ATGTATCGATACA
1 ATGTATCGATACA
2735781 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:2738042 original size:21 final size:22
Alignment explanation
Indices: 2737996--2738040 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
2737986 TTGCAAGATG
2737996 AAATAAAGAAGTTAGCTAATGA
1 AAATAAAGAAGTTAGCTAATGA
*
2738018 AAATAATG-AGTTAGCTAA-GA
1 AAATAAAGAAGTTAGCTAATGA
2738038 AAA
1 AAA
2738041 ATGAAAACTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 5 0.23
21 10 0.45
22 7 0.32
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (22 bp):
AAATAAAGAAGTTAGCTAATGA
Found at i:2739864 original size:15 final size:15
Alignment explanation
Indices: 2739844--2739874 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2739834 TAAAAATGTC
*
2739844 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
2739859 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
2739874 C
1 C
2739875 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:2742732 original size:12 final size:12
Alignment explanation
Indices: 2742715--2742744 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
2742705 TGAAGTAATG
2742715 GAACTCAACTGA
1 GAACTCAACTGA
2742727 GAACTCAACTGA
1 GAACTCAACTGA
2742739 GAACTC
1 GAACTC
2742745 CTTGTCTTGA
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:0.40, C:0.27, G:0.17, T:0.17
Consensus pattern (12 bp):
GAACTCAACTGA
Found at i:2743543 original size:2 final size:2
Alignment explanation
Indices: 2743536--2743582 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
2743526 CAAAATGAAA
2743536 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
2743578 TC TC T
1 TC TC T
2743583 TTGCTAGAAC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:2744514 original size:22 final size:21
Alignment explanation
Indices: 2744473--2744515 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
2744463 TTTTTTTAAA
* *
2744473 AAATTATATTTTTATTAAATT
1 AAATAATATTTTAATTAAATT
2744494 AAATAATATTTATAATTAAATT
1 AAATAATATTT-TAATTAAATT
2744516 TTTTCAATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
AAATAATATTTTAATTAAATT
Found at i:2744569 original size:21 final size:21
Alignment explanation
Indices: 2744543--2744612 Score: 65
Period size: 20 Copynumber: 3.4 Consensus size: 21
2744533 TTAATTTTTT
* **
2744543 TATTTTTAATTTTTTTTAAAA
1 TATTTTTAAATTTTAATAAAA
2744564 TA-TTTTAAATTTTAATAAAA
1 TATTTTTAAATTTTAATAAAA
*
2744584 TATTTTT--ATATTAATAAAA
1 TATTTTTAAATTTTAATAAAA
*
2744603 TTAATTTTAA
1 -TATTTTTAA
2744613 TTTAATTTAA
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
19 11 0.28
20 23 0.57
21 6 0.15
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TATTTTTAAATTTTAATAAAA
Found at i:2744599 original size:19 final size:20
Alignment explanation
Indices: 2744559--2744603 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
2744549 TAATTTTTTT
*
2744559 TAAAATATTTTAAATTTTAA
1 TAAAATATTTTAAATATTAA
*
2744579 TAAAATATTTT-TATATTAA
1 TAAAATATTTTAAATATTAA
2744598 TAAAAT
1 TAAAAT
2744604 TAATTTTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 12 0.52
20 11 0.48
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
TAAAATATTTTAAATATTAA
Done.